From 5f52eabb1c3d7a692192f469f251984450e0462a Mon Sep 17 00:00:00 2001 From: Jon Ison Date: Thu, 20 Oct 2016 20:23:28 +0100 Subject: [PATCH] moving edam-bioimaging files to their own repo --- EDAM-bioimaging_dev.owl | 2130 ---------------------------------- releases/EDAM-bioimaging_alpha01.owl | 2130 ---------------------------------- 2 files changed, 4260 deletions(-) delete mode 100644 EDAM-bioimaging_dev.owl delete mode 100644 releases/EDAM-bioimaging_alpha01.owl diff --git a/EDAM-bioimaging_dev.owl b/EDAM-bioimaging_dev.owl deleted file mode 100644 index 6d05ce2..0000000 --- a/EDAM-bioimaging_dev.owl +++ /dev/null @@ -1,2130 +0,0 @@ - - - - - - - - - - - - - -]> - - - - - EDAM_topic http://edamontology.org/topic_ "EDAM topics" - EDAM_operation http://edamontology.org/operation_ "EDAM operations" - formats "EDAM data formats" - EDAM - Jon Ison - identifiers "EDAM types of identifiers" - data "EDAM types of data" - relations "EDAM relations" - edam "EDAM" - operations "EDAM operations" - EDAM ontology subset created on behalf of NEUBIAS. - EDAM http://edamontology.org/ "EDAM relations and concept properties" - application/rdf+xml - 20.10.2016 10:41 GMT - EDAM_data http://edamontology.org/data_ "EDAM types of data" - concept_properties "EDAM concept properties" - Jon Ison - Aaron Ponti - Petter Ranefall - Jeremy Pike - Hervé Ménager - Matúš Kalaš - Bioimaging operations, data types, formats, identifiers and topics - EDAM_format http://edamontology.org/format_ "EDAM data formats" - - topics "EDAM topics" - EDAM-Bioimaging is an extension to the EDAM ontology (edamontology.org) for bioimaging, developed in collaboration with partners from NEUBIAS (neubias.org). - alpha01 - - - - - - - - - - - - - - - Citation - concept_properties - 1.13 - Publication reference - Publication - 'Citation' concept property ('citation' metadata tag) contains a dereferenceable URI, preferrably including a DOI, pointing to a citeable publication of the given data format. - true - - - - - - - - Created in - Version in which a concept was created. - true - concept_properties - - - - - - - - Documentation - Specification - 'Documentation' trailing modifier (qualifier, 'documentation') of 'xref' links of 'Format' concepts. When 'true', the link is pointing to a page with explanation, description, documentation, or specification of the given data format. - true - concept_properties - - - - - - - - Example - 'Example' concept property ('example' metadata tag) lists examples of valid values of types of identifiers (accessions). Applicable to some other types of data, too. - true - Separated by bar ('|'). - concept_properties - - - - - - - - File extension - 'File extension' concept property ('file_extension' metadata tag) lists examples of usual file extensions of formats. - Separated by bar ('|'), without a dot ('.') prefix, preferrably not all capital characters. - concept_properties - true - - - - - - - - isdebtag - When 'true', the term has been proposed or is supported within Debian Med as a tag. - concept_properties - true - - - - - - - - Media type - MIME type - 'Media type' trailing modifier (qualifier, 'media_type') of 'xref' links of 'Format' concepts. When 'true', the link is pointing to a page specifying a media type of the given data format. - true - concept_properties - - - - - - - - - - - - - - Obsolete since - true - concept_properties - Version in which a concept was made obsolete. - - - - - - - - Regular expression - 'Regular expression' concept property ('regex' metadata tag) specifies the allowed values of types of identifiers (accessions). Applicable to some other types of data, too. - concept_properties - true - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - has format - "http://purl.obolibrary.org/obo/OBI_0000298" - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is (or is in a role of) 'Data', or an input, output, input or output argument of an 'Operation'. Object B can either be a concept that is a 'Format', or in unexpected cases an entity outside of an ontology that is a 'Format' or is in the role of a 'Format'. In EDAM, 'has_format' is not explicitly defined between EDAM concepts, only the inverse 'is_format_of'. - false - OBO_REL:is_a - relations - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#has-quality" - false - false - edam - 'A has_format B' defines for the subject A, that it has the object B as its data format. - false - - - - - - - - - - has function - http://wsio.org/has_function - false - OBO_REL:is_a - OBO_REL:bearer_of - edam - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is (or is in a role of) a function, or an entity outside of an ontology that is (or is in a role of) a function specification. In the scope of EDAM, 'has_function' serves only for relating annotated entities outside of EDAM with 'Operation' concepts. - false - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#has-quality" - true - 'A has_function B' defines for the subject A, that it has the object B as its function. - "http://purl.obolibrary.org/obo/OBI_0000306" - relations - false - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:bearer_of' is narrower in the sense that it only relates ontological categories (concepts) that are an 'independent_continuant' (snap:IndependentContinuant) with ontological categories that are a 'specifically_dependent_continuant' (snap:SpecificallyDependentContinuant), and broader in the sense that it relates with any borne objects not just functions of the subject. - OBO_REL:bearer_of - - - - - In very unusual cases. - true - - - - - - - - - - has identifier - false - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is an 'Identifier', or an entity outside of an ontology that is an 'Identifier' or is in the role of an 'Identifier'. In EDAM, 'has_identifier' is not explicitly defined between EDAM concepts, only the inverse 'is_identifier_of'. - false - false - relations - false - OBO_REL:is_a - 'A has_identifier B' defines for the subject A, that it has the object B as its identifier. - edam - - - - - - - - - has input - OBO_REL:has_participant - "http://purl.obolibrary.org/obo/OBI_0000293" - false - http://wsio.org/has_input - Subject A can either be concept that is or has an 'Operation' function, or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that has an 'Operation' function or is an 'Operation'. Object B can be any concept or entity. In EDAM, only 'has_input' is explicitly defined between EDAM concepts ('Operation' 'has_input' 'Data'). The inverse, 'is_input_of', is not explicitly defined. - relations - OBO_REL:is_a - false - 'A has_input B' defines for the subject A, that it has the object B as a necessary or actual input or input argument. - false - true - edam - - - - - 'OBO_REL:has_participant' is narrower in the sense that it only relates ontological categories (concepts) that are a 'process' (span:Process) with ontological categories that are a 'continuant' (snap:Continuant), and broader in the sense that it relates with any participating objects not just inputs or input arguments of the subject. - OBO_REL:has_participant - - - - - In very unusual cases. - true - - - - - - - - - - has output - http://wsio.org/has_output - Subject A can either be concept that is or has an 'Operation' function, or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that has an 'Operation' function or is an 'Operation'. Object B can be any concept or entity. In EDAM, only 'has_output' is explicitly defined between EDAM concepts ('Operation' 'has_output' 'Data'). The inverse, 'is_output_of', is not explicitly defined. - edam - "http://purl.obolibrary.org/obo/OBI_0000299" - OBO_REL:is_a - relations - OBO_REL:has_participant - true - 'A has_output B' defines for the subject A, that it has the object B as a necessary or actual output or output argument. - false - false - false - - - - - 'OBO_REL:has_participant' is narrower in the sense that it only relates ontological categories (concepts) that are a 'process' (span:Process) with ontological categories that are a 'continuant' (snap:Continuant), and broader in the sense that it relates with any participating objects not just outputs or output arguments of the subject. It is also not clear whether an output (result) actually participates in the process that generates it. - OBO_REL:has_participant - - - - - In very unusual cases. - true - - - - - - - - - - has topic - relations - true - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is a 'Topic', or in unexpected cases an entity outside of an ontology that is a 'Topic' or is in the role of a 'Topic'. In EDAM, only 'has_topic' is explicitly defined between EDAM concepts ('Operation' or 'Data' 'has_topic' 'Topic'). The inverse, 'is_topic_of', is not explicitly defined. - false - 'A has_topic B' defines for the subject A, that it has the object B as its topic (A is in the scope of a topic B). - edam - OBO_REL:is_a - http://annotation-ontology.googlecode.com/svn/trunk/annotation-core.owl#hasTopic - false - "http://purl.obolibrary.org/obo/IAO_0000136" - false - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#has-quality - "http://purl.obolibrary.org/obo/OBI_0000298" - - - - - - - - - - - - true - In very unusual cases. - - - - - - - - - - is format of - false - OBO_REL:is_a - false - false - false - 'A is_format_of B' defines for the subject A, that it is a data format of the object B. - edam - relations - Subject A can either be a concept that is a 'Format', or in unexpected cases an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is a 'Format' or is in the role of a 'Format'. Object B can be any concept or entity outside of an ontology that is (or is in a role of) 'Data', or an input, output, input or output argument of an 'Operation'. In EDAM, only 'is_format_of' is explicitly defined between EDAM concepts ('Format' 'is_format_of' 'Data'). The inverse, 'has_format', is not explicitly defined. - OBO_REL:quality_of - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#inherent-in - - - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:quality_of' might be seen narrower in the sense that it only relates subjects that are a 'quality' (snap:Quality) with objects that are an 'independent_continuant' (snap:IndependentContinuant), and is broader in the sense that it relates any qualities of the object. - OBO_REL:quality_of - - - - - - - - - - is function of - Subject A can either be concept that is (or is in a role of) a function, or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is (or is in a role of) a function specification. Object B can be any concept or entity. Within EDAM itself, 'is_function_of' is not used. - OBO_REL:inheres_in - true - OBO_REL:is_a - false - 'A is_function_of B' defines for the subject A, that it is a function of the object B. - OBO_REL:function_of - edam - http://wsio.org/is_function_of - relations - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#inherent-in - false - false - - - - - OBO_REL:function_of - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:function_of' only relates subjects that are a 'function' (snap:Function) with objects that are an 'independent_continuant' (snap:IndependentContinuant), so for example no processes. It does not define explicitly that the subject is a function of the object. - - - - - true - In very unusual cases. - - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:inheres_in' is narrower in the sense that it only relates ontological categories (concepts) that are a 'specifically_dependent_continuant' (snap:SpecificallyDependentContinuant) with ontological categories that are an 'independent_continuant' (snap:IndependentContinuant), and broader in the sense that it relates any borne subjects not just functions. - OBO_REL:inheres_in - - - - - - - - - - is identifier of - false - false - edam - false - relations - Subject A can either be a concept that is an 'Identifier', or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is an 'Identifier' or is in the role of an 'Identifier'. Object B can be any concept or entity outside of an ontology. In EDAM, only 'is_identifier_of' is explicitly defined between EDAM concepts (only 'Identifier' 'is_identifier_of' 'Data'). The inverse, 'has_identifier', is not explicitly defined. - 'A is_identifier_of B' defines for the subject A, that it is an identifier of the object B. - OBO_REL:is_a - false - - - - - - - - - - is input of - false - http://wsio.org/is_input_of - relations - true - false - OBO_REL:participates_in - OBO_REL:is_a - "http://purl.obolibrary.org/obo/OBI_0000295" - edam - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is or has an 'Operation' function, or an entity outside of an ontology that has an 'Operation' function or is an 'Operation'. In EDAM, 'is_input_of' is not explicitly defined between EDAM concepts, only the inverse 'has_input'. - false - 'A is_input_of B' defines for the subject A, that it as a necessary or actual input or input argument of the object B. - - - - - - In very unusual cases. - true - - - - - 'OBO_REL:participates_in' is narrower in the sense that it only relates ontological categories (concepts) that are a 'continuant' (snap:Continuant) with ontological categories that are a 'process' (span:Process), and broader in the sense that it relates any participating subjects not just inputs or input arguments. - OBO_REL:participates_in - - - - - - - - - - is output of - OBO_REL:is_a - false - false - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is or has an 'Operation' function, or an entity outside of an ontology that has an 'Operation' function or is an 'Operation'. In EDAM, 'is_output_of' is not explicitly defined between EDAM concepts, only the inverse 'has_output'. - edam - false - 'A is_output_of B' defines for the subject A, that it as a necessary or actual output or output argument of the object B. - OBO_REL:participates_in - http://wsio.org/is_output_of - true - relations - "http://purl.obolibrary.org/obo/OBI_0000312" - - - - - - 'OBO_REL:participates_in' is narrower in the sense that it only relates ontological categories (concepts) that are a 'continuant' (snap:Continuant) with ontological categories that are a 'process' (span:Process), and broader in the sense that it relates any participating subjects not just outputs or output arguments. It is also not clear whether an output (result) actually participates in the process that generates it. - OBO_REL:participates_in - - - - - In very unusual cases. - true - - - - - - - - - - is topic of - 'A is_topic_of B' defines for the subject A, that it is a topic of the object B (a topic A is the scope of B). - relations - OBO_REL:quality_of - false - true - false - Subject A can either be a concept that is a 'Topic', or in unexpected cases an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is a 'Topic' or is in the role of a 'Topic'. Object B can be any concept or entity outside of an ontology. In EDAM, 'is_topic_of' is not explicitly defined between EDAM concepts, only the inverse 'has_topic'. - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#inherent-in - false - OBO_REL:is_a - edam - - - - - - - - - - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:quality_of' might be seen narrower in the sense that it only relates subjects that are a 'quality' (snap:Quality) with objects that are an 'independent_continuant' (snap:IndependentContinuant), and is broader in the sense that it relates any qualities of the object. - OBO_REL:quality_of - - - - - In very unusual cases. - true - - - - - - - - - - - - - - - 1D image - - - - - - - - - 2D image - - - - - - - - - 3D image - - - - - - - - - 4D image - - - - - - - - - Active contours - - ToDo: relation of this to "Contours" ? - - - - - - - - Active meshes - - ToDo: and/or is this a child of "Image segmentation" ? - - - - - - - - Adaptative thresholding - - - - - - - - - Anaglyph - - - - - - - - - - - - - - - - - Cell counting - - - - - - - - - Cell segmentation - - - - - - - - - Cell tracking - - - - - - - - - - - - - - - - - Colour - - channel - rgb - - - - - - - - - ToDo: relation of this to "Active contours" ? - Contours - - - - - - - - Convolution - - - - - - - - - Crop - - - - - - - - - - - - - - - - - Deformation - - - - - - - - - - Noise reduction - - - - - - - - Detection - - ToDo: this a placeholder for other more specific concepts (add these relationships) - - - - - - - - Digital histology - - - - - - - - - - - - - - - - - Distance transform - - - - - - - - - Edge detection - - - - - - - - - - Electron microscopy - - ToDo: topic:0611 - - - - - - - - - - - - - - - - Feature extraction - - SURF - Image labeling - Feature detection - - - - - - - - Fluorescent microscopy - - - - - - - - - Geometrical transform - - - - - - - - - - - - - - - - - High content screening - - hcs - - - - - - - - - - - - - - - - Illumination correction - - - - - - - - - Image - - - - - - - - - Image acquisition - - Camera - Imaging - - - - - - - - Image analysis - - General image analysis - - - - - - - - Batch processing - - - - - - - - - Image classification - - Object classification - Classification - Image clustering - - - - - - - - Image colocalization - - Manders coefficient - - - - - - - - Image decomposition - - - - - - - - - Image deconvolution - - - - - - - - - Image enhancement - - - - - - - - - Image filtering - - Gaussian - - - - - - - - Image geometry - - - - - - - - - Image histogram - - - - - - - - - Image measurement - - - - - - - - - Image metadata - - - - - - - - - Image processing - - Image postprocessing - - - - - - - - Image reconstruction - - - - - - - - - Image registration - Elastic alignment - - Image alignment - - - - - - - - Image restoration - - Image correction - Point spread function - PSF - - - - - - - - Image segmentation - - Interactive segmentation - Snakes - - - - - - - - Image skeletoning - - - - - - - - - Smoothing - - - - - - - - - Image stack - - - - - - - - - Image stitching - - - - - - - - - Image thresholding - - Thresholding - Clustering-based image thresholding - - - - - - - - Image tracing - - - - - - - - - Image tracking - - Tracking - Track processor - - - - - - - - Image transformation - - fft - - - - - - - - Image visualisation - - Rendering - Lookup table - - - - - - - - - - - - - - - - Interactive segmentation - - - - - - - - - Light-sheet microscopy - - Spim - - - - - - - - Light microscopy - - Brightfield - Fluorescence recovery after photobleaching - Frap - - - - - - - - Linear transformation - - Affine - - - - - - - - Local thresholding - - - - - - - - - Machine learning - - ToDo: topic:3316 - - - - - - - - Microscopy - - Slide scanner - ToDo: topic:3382 - - - - - - - - - - - - - - - - Morphological operation - - Morphology - Morphological image processing - - - - - - - - Neuron image analysis - - - - - - - - - - Add noise - - - - - - - - Object detection - - - - - - - - - Opening - - - - - - - - - Optical flow analysis - - - - - - - - - - - - - - - - - Particle extraction - - - - - - - - - Particle tracking - - - - - - - - - Pixel classification - - - - - - - - - Plotting - - - - - - - - - Principal component analysis - - - - - - - - - Projection - - Maximum projection - Maximum intensity projection - Minimum projection - Image projection - Mean projection - - - - - - - - Rotation - - - - - - - - - Shape features - - - - - - - - - Skeletonisation - - Medial axis - - - - - - - - Speed - - - - - - - - - Spot extraction - - Spot detection - - - - - - - - Statistics - - - - - - - - - Super-resolution microscopy - - palm - Photoactivated localization microscopy - - - - - - - - Texture extraction - - Inverse Difference Moment - - - - - - - - Texture features - - - - - - - - - - - - - - - - - Time-lapse data - - - - - - - - - Time series - - - - - - - - - Topology - - - - - - - - - - - - - - - - - Transform - - - - - - - - - Volume - - - - - - - - - Volume rendering - - - - - - - - - Warping - - - - - - - - - - - - - - - - - Wavelet transformation - - - - - - - - - Widefield microscopy - - - - - - - - - avi - - .avi - - - - - - - - csv - - - - - - - - - dat - - .dat - - - - - - - - hdf5 - - - - - - - - - hdr - - .hdr - - - - - - - - img - - .img - - - - - - - - ims - - .ims - - - - - - - - ism - - - - - - - - - jpg - - .jpg - - - - - - - - mpeg - - - - - - - - - raw - - .raw - - - - - - - - roi - - Region of interest - - - - - - - - scn - - .scn - - - - - - - - sm2 - - .sm2 - - - - - - - - sm3 - - .sm3 - - - - - - - - stk - - .stk - - - - - - - - tif - - - - - - - - - tiff - - .tiff - - - - - - - - txt - - .txt - - - - - - - - vsi - - .vsi - - - - - - - - xml - - .xml - - - - - - - - Data - - - - Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output. - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - http://semanticscience.org/resource/SIO_000088 - http://semanticscience.org/resource/SIO_000069 - "http://purl.obolibrary.org/obo/IAO_0000030" - "http://purl.obolibrary.org/obo/IAO_0000027" - Data set - Data record - beta12orEarlier - http://wsio.org/data_002 - http://purl.org/biotop/biotop.owl#DigitalEntity - http://www.ifomis.org/bfo/1.1/snap#Continuant - Datum - - - - - Data set - EDAM does not distinguish the multiplicity of data, such as one data item (datum) versus a collection of data (data set). - - - - - EDAM does not distinguish a data record (a tool-understandable information artefact) from data or datum (its content, the tool-understandable encoding of an information). - Data record - - - - - Datum - EDAM does not distinguish the multiplicity of data, such as one data item (datum) versus a collection of data (data set). - - - - - - - - - - Format - - - http://en.wikipedia.org/wiki/File_format - http://purl.org/biotop/biotop.owl#MachineLanguage - File format - Data model - http://www.onto-med.de/ontologies/gfo.owl#Symbol_structure - Exchange format - "http://purl.obolibrary.org/obo/IAO_0000098" - http://semanticscience.org/resource/SIO_000612 - http://semanticscience.org/resource/SIO_000618 - beta12orEarlier - http://www.ifomis.org/bfo/1.1/snap#Continuant - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#quality - "http://purl.org/dc/elements/1.1/format" - http://wsio.org/compression_004 - A defined way or layout of representing and structuring data in a computer file, blob, string, message, or elsewhere. - http://en.wikipedia.org/wiki/List_of_file_formats - http://www.ifomis.org/bfo/1.1/snap#Quality - Data format - http://purl.org/biotop/biotop.owl#Quality - The main focus in EDAM lies on formats as means of structuring data exchanged between different tools or resources. The serialisation, compression, or encoding of concrete data formats/models is not in scope of EDAM. Format 'is format of' Data. - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - - - - - A defined data format has its implicit or explicit data model, and EDAM does not distinguish the two. Some data models however do not have any standard way of serialisation into an exchange format, and those are thus not considered formats in EDAM. (Remark: even broader - or closely related - term to 'Data model' would be an 'Information model'.) - Data model - - - - - File format denotes only formats of a computer file, but the same formats apply also to data blobs or exchanged messages. - File format - - - - - - - - - - Operation - - A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs). - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - Computational tool - Function - http://purl.org/biotop/biotop.owl#Function - http://www.ifomis.org/bfo/1.1/snap#Function - http://en.wikipedia.org/wiki/Function_(mathematics) - Computational method - http://semanticscience.org/resource/SIO_000017 - http://www.ebi.ac.uk/swo/SWO_0000003 - Mathematical operation - sumo:Function - beta12orEarlier - Process - Computational operation - Computational subroutine - http://semanticscience.org/resource/SIO_000649 - Special cases are: a) An operation that consumes no input (has no input arguments). Such operation is either a constant function, or an operation depending only on the underlying state. b) An operation that may modify the underlying state but has no output. c) The singular-case operation with no input or output, that still may modify the underlying state. - http://www.ifomis.org/bfo/1.1/span#Process - http://www.ifomis.org/bfo/1.1/snap#Continuant - http://onto.eva.mpg.de/ontologies/gfo-bio.owl#Method - Computational procedure - Mathematical function - Lambda abstraction - Function (programming) - http://www.onto-med.de/ontologies/gfo.owl#Process - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#quality - http://wsio.org/operation_001 - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#process - http://www.ifomis.org/bfo/1.1/snap#Quality - http://www.onto-med.de/ontologies/gfo.owl#Function - http://en.wikipedia.org/wiki/Function_(computer_science) - http://en.wikipedia.org/wiki/Subroutine - - - - - Operation is a function that is computational. It typically has input(s) and output(s), which are always data. - Function - - - - - Computational tool - Computational tool provides one or more operations. - - - - - Process can have a function (as its quality/attribute), and can also perform an operation with inputs and outputs. - Process - - - - - - - - - - Topic - http://purl.org/biotop/biotop.owl#Quality - http://bioontology.org/ontologies/ResearchArea.owl#Area_of_Research - http://www.onto-med.de/ontologies/gfo.owl#Category - http://www.ifomis.org/bfo/1.1/snap#Quality - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other. - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#quality - beta12orEarlier - http://www.ifomis.org/bfo/1.1/snap#Continuant - sumo:FieldOfStudy - http://onto.eva.mpg.de/ontologies/gfo-bio.owl#Method - - - - - - - - - diff --git a/releases/EDAM-bioimaging_alpha01.owl b/releases/EDAM-bioimaging_alpha01.owl deleted file mode 100644 index 6d05ce2..0000000 --- a/releases/EDAM-bioimaging_alpha01.owl +++ /dev/null @@ -1,2130 +0,0 @@ - - - - - - - - - - - - - -]> - - - - - EDAM_topic http://edamontology.org/topic_ "EDAM topics" - EDAM_operation http://edamontology.org/operation_ "EDAM operations" - formats "EDAM data formats" - EDAM - Jon Ison - identifiers "EDAM types of identifiers" - data "EDAM types of data" - relations "EDAM relations" - edam "EDAM" - operations "EDAM operations" - EDAM ontology subset created on behalf of NEUBIAS. - EDAM http://edamontology.org/ "EDAM relations and concept properties" - application/rdf+xml - 20.10.2016 10:41 GMT - EDAM_data http://edamontology.org/data_ "EDAM types of data" - concept_properties "EDAM concept properties" - Jon Ison - Aaron Ponti - Petter Ranefall - Jeremy Pike - Hervé Ménager - Matúš Kalaš - Bioimaging operations, data types, formats, identifiers and topics - EDAM_format http://edamontology.org/format_ "EDAM data formats" - - topics "EDAM topics" - EDAM-Bioimaging is an extension to the EDAM ontology (edamontology.org) for bioimaging, developed in collaboration with partners from NEUBIAS (neubias.org). - alpha01 - - - - - - - - - - - - - - - Citation - concept_properties - 1.13 - Publication reference - Publication - 'Citation' concept property ('citation' metadata tag) contains a dereferenceable URI, preferrably including a DOI, pointing to a citeable publication of the given data format. - true - - - - - - - - Created in - Version in which a concept was created. - true - concept_properties - - - - - - - - Documentation - Specification - 'Documentation' trailing modifier (qualifier, 'documentation') of 'xref' links of 'Format' concepts. When 'true', the link is pointing to a page with explanation, description, documentation, or specification of the given data format. - true - concept_properties - - - - - - - - Example - 'Example' concept property ('example' metadata tag) lists examples of valid values of types of identifiers (accessions). Applicable to some other types of data, too. - true - Separated by bar ('|'). - concept_properties - - - - - - - - File extension - 'File extension' concept property ('file_extension' metadata tag) lists examples of usual file extensions of formats. - Separated by bar ('|'), without a dot ('.') prefix, preferrably not all capital characters. - concept_properties - true - - - - - - - - isdebtag - When 'true', the term has been proposed or is supported within Debian Med as a tag. - concept_properties - true - - - - - - - - Media type - MIME type - 'Media type' trailing modifier (qualifier, 'media_type') of 'xref' links of 'Format' concepts. When 'true', the link is pointing to a page specifying a media type of the given data format. - true - concept_properties - - - - - - - - - - - - - - Obsolete since - true - concept_properties - Version in which a concept was made obsolete. - - - - - - - - Regular expression - 'Regular expression' concept property ('regex' metadata tag) specifies the allowed values of types of identifiers (accessions). Applicable to some other types of data, too. - concept_properties - true - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - has format - "http://purl.obolibrary.org/obo/OBI_0000298" - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is (or is in a role of) 'Data', or an input, output, input or output argument of an 'Operation'. Object B can either be a concept that is a 'Format', or in unexpected cases an entity outside of an ontology that is a 'Format' or is in the role of a 'Format'. In EDAM, 'has_format' is not explicitly defined between EDAM concepts, only the inverse 'is_format_of'. - false - OBO_REL:is_a - relations - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#has-quality" - false - false - edam - 'A has_format B' defines for the subject A, that it has the object B as its data format. - false - - - - - - - - - - has function - http://wsio.org/has_function - false - OBO_REL:is_a - OBO_REL:bearer_of - edam - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is (or is in a role of) a function, or an entity outside of an ontology that is (or is in a role of) a function specification. In the scope of EDAM, 'has_function' serves only for relating annotated entities outside of EDAM with 'Operation' concepts. - false - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#has-quality" - true - 'A has_function B' defines for the subject A, that it has the object B as its function. - "http://purl.obolibrary.org/obo/OBI_0000306" - relations - false - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:bearer_of' is narrower in the sense that it only relates ontological categories (concepts) that are an 'independent_continuant' (snap:IndependentContinuant) with ontological categories that are a 'specifically_dependent_continuant' (snap:SpecificallyDependentContinuant), and broader in the sense that it relates with any borne objects not just functions of the subject. - OBO_REL:bearer_of - - - - - In very unusual cases. - true - - - - - - - - - - has identifier - false - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is an 'Identifier', or an entity outside of an ontology that is an 'Identifier' or is in the role of an 'Identifier'. In EDAM, 'has_identifier' is not explicitly defined between EDAM concepts, only the inverse 'is_identifier_of'. - false - false - relations - false - OBO_REL:is_a - 'A has_identifier B' defines for the subject A, that it has the object B as its identifier. - edam - - - - - - - - - has input - OBO_REL:has_participant - "http://purl.obolibrary.org/obo/OBI_0000293" - false - http://wsio.org/has_input - Subject A can either be concept that is or has an 'Operation' function, or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that has an 'Operation' function or is an 'Operation'. Object B can be any concept or entity. In EDAM, only 'has_input' is explicitly defined between EDAM concepts ('Operation' 'has_input' 'Data'). The inverse, 'is_input_of', is not explicitly defined. - relations - OBO_REL:is_a - false - 'A has_input B' defines for the subject A, that it has the object B as a necessary or actual input or input argument. - false - true - edam - - - - - 'OBO_REL:has_participant' is narrower in the sense that it only relates ontological categories (concepts) that are a 'process' (span:Process) with ontological categories that are a 'continuant' (snap:Continuant), and broader in the sense that it relates with any participating objects not just inputs or input arguments of the subject. - OBO_REL:has_participant - - - - - In very unusual cases. - true - - - - - - - - - - has output - http://wsio.org/has_output - Subject A can either be concept that is or has an 'Operation' function, or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that has an 'Operation' function or is an 'Operation'. Object B can be any concept or entity. In EDAM, only 'has_output' is explicitly defined between EDAM concepts ('Operation' 'has_output' 'Data'). The inverse, 'is_output_of', is not explicitly defined. - edam - "http://purl.obolibrary.org/obo/OBI_0000299" - OBO_REL:is_a - relations - OBO_REL:has_participant - true - 'A has_output B' defines for the subject A, that it has the object B as a necessary or actual output or output argument. - false - false - false - - - - - 'OBO_REL:has_participant' is narrower in the sense that it only relates ontological categories (concepts) that are a 'process' (span:Process) with ontological categories that are a 'continuant' (snap:Continuant), and broader in the sense that it relates with any participating objects not just outputs or output arguments of the subject. It is also not clear whether an output (result) actually participates in the process that generates it. - OBO_REL:has_participant - - - - - In very unusual cases. - true - - - - - - - - - - has topic - relations - true - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is a 'Topic', or in unexpected cases an entity outside of an ontology that is a 'Topic' or is in the role of a 'Topic'. In EDAM, only 'has_topic' is explicitly defined between EDAM concepts ('Operation' or 'Data' 'has_topic' 'Topic'). The inverse, 'is_topic_of', is not explicitly defined. - false - 'A has_topic B' defines for the subject A, that it has the object B as its topic (A is in the scope of a topic B). - edam - OBO_REL:is_a - http://annotation-ontology.googlecode.com/svn/trunk/annotation-core.owl#hasTopic - false - "http://purl.obolibrary.org/obo/IAO_0000136" - false - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#has-quality - "http://purl.obolibrary.org/obo/OBI_0000298" - - - - - - - - - - - - true - In very unusual cases. - - - - - - - - - - is format of - false - OBO_REL:is_a - false - false - false - 'A is_format_of B' defines for the subject A, that it is a data format of the object B. - edam - relations - Subject A can either be a concept that is a 'Format', or in unexpected cases an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is a 'Format' or is in the role of a 'Format'. Object B can be any concept or entity outside of an ontology that is (or is in a role of) 'Data', or an input, output, input or output argument of an 'Operation'. In EDAM, only 'is_format_of' is explicitly defined between EDAM concepts ('Format' 'is_format_of' 'Data'). The inverse, 'has_format', is not explicitly defined. - OBO_REL:quality_of - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#inherent-in - - - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:quality_of' might be seen narrower in the sense that it only relates subjects that are a 'quality' (snap:Quality) with objects that are an 'independent_continuant' (snap:IndependentContinuant), and is broader in the sense that it relates any qualities of the object. - OBO_REL:quality_of - - - - - - - - - - is function of - Subject A can either be concept that is (or is in a role of) a function, or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is (or is in a role of) a function specification. Object B can be any concept or entity. Within EDAM itself, 'is_function_of' is not used. - OBO_REL:inheres_in - true - OBO_REL:is_a - false - 'A is_function_of B' defines for the subject A, that it is a function of the object B. - OBO_REL:function_of - edam - http://wsio.org/is_function_of - relations - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#inherent-in - false - false - - - - - OBO_REL:function_of - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:function_of' only relates subjects that are a 'function' (snap:Function) with objects that are an 'independent_continuant' (snap:IndependentContinuant), so for example no processes. It does not define explicitly that the subject is a function of the object. - - - - - true - In very unusual cases. - - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:inheres_in' is narrower in the sense that it only relates ontological categories (concepts) that are a 'specifically_dependent_continuant' (snap:SpecificallyDependentContinuant) with ontological categories that are an 'independent_continuant' (snap:IndependentContinuant), and broader in the sense that it relates any borne subjects not just functions. - OBO_REL:inheres_in - - - - - - - - - - is identifier of - false - false - edam - false - relations - Subject A can either be a concept that is an 'Identifier', or an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is an 'Identifier' or is in the role of an 'Identifier'. Object B can be any concept or entity outside of an ontology. In EDAM, only 'is_identifier_of' is explicitly defined between EDAM concepts (only 'Identifier' 'is_identifier_of' 'Data'). The inverse, 'has_identifier', is not explicitly defined. - 'A is_identifier_of B' defines for the subject A, that it is an identifier of the object B. - OBO_REL:is_a - false - - - - - - - - - - is input of - false - http://wsio.org/is_input_of - relations - true - false - OBO_REL:participates_in - OBO_REL:is_a - "http://purl.obolibrary.org/obo/OBI_0000295" - edam - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is or has an 'Operation' function, or an entity outside of an ontology that has an 'Operation' function or is an 'Operation'. In EDAM, 'is_input_of' is not explicitly defined between EDAM concepts, only the inverse 'has_input'. - false - 'A is_input_of B' defines for the subject A, that it as a necessary or actual input or input argument of the object B. - - - - - - In very unusual cases. - true - - - - - 'OBO_REL:participates_in' is narrower in the sense that it only relates ontological categories (concepts) that are a 'continuant' (snap:Continuant) with ontological categories that are a 'process' (span:Process), and broader in the sense that it relates any participating subjects not just inputs or input arguments. - OBO_REL:participates_in - - - - - - - - - - is output of - OBO_REL:is_a - false - false - Subject A can be any concept or entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated). Object B can either be a concept that is or has an 'Operation' function, or an entity outside of an ontology that has an 'Operation' function or is an 'Operation'. In EDAM, 'is_output_of' is not explicitly defined between EDAM concepts, only the inverse 'has_output'. - edam - false - 'A is_output_of B' defines for the subject A, that it as a necessary or actual output or output argument of the object B. - OBO_REL:participates_in - http://wsio.org/is_output_of - true - relations - "http://purl.obolibrary.org/obo/OBI_0000312" - - - - - - 'OBO_REL:participates_in' is narrower in the sense that it only relates ontological categories (concepts) that are a 'continuant' (snap:Continuant) with ontological categories that are a 'process' (span:Process), and broader in the sense that it relates any participating subjects not just outputs or output arguments. It is also not clear whether an output (result) actually participates in the process that generates it. - OBO_REL:participates_in - - - - - In very unusual cases. - true - - - - - - - - - - is topic of - 'A is_topic_of B' defines for the subject A, that it is a topic of the object B (a topic A is the scope of B). - relations - OBO_REL:quality_of - false - true - false - Subject A can either be a concept that is a 'Topic', or in unexpected cases an entity outside of an ontology (or an ontology concept in a role of an entity being semantically annotated) that is a 'Topic' or is in the role of a 'Topic'. Object B can be any concept or entity outside of an ontology. In EDAM, 'is_topic_of' is not explicitly defined between EDAM concepts, only the inverse 'has_topic'. - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#inherent-in - false - OBO_REL:is_a - edam - - - - - - - - - - - - - Is defined anywhere? Not in the 'unknown' version of RO. 'OBO_REL:quality_of' might be seen narrower in the sense that it only relates subjects that are a 'quality' (snap:Quality) with objects that are an 'independent_continuant' (snap:IndependentContinuant), and is broader in the sense that it relates any qualities of the object. - OBO_REL:quality_of - - - - - In very unusual cases. - true - - - - - - - - - - - - - - - 1D image - - - - - - - - - 2D image - - - - - - - - - 3D image - - - - - - - - - 4D image - - - - - - - - - Active contours - - ToDo: relation of this to "Contours" ? - - - - - - - - Active meshes - - ToDo: and/or is this a child of "Image segmentation" ? - - - - - - - - Adaptative thresholding - - - - - - - - - Anaglyph - - - - - - - - - - - - - - - - - Cell counting - - - - - - - - - Cell segmentation - - - - - - - - - Cell tracking - - - - - - - - - - - - - - - - - Colour - - channel - rgb - - - - - - - - - ToDo: relation of this to "Active contours" ? - Contours - - - - - - - - Convolution - - - - - - - - - Crop - - - - - - - - - - - - - - - - - Deformation - - - - - - - - - - Noise reduction - - - - - - - - Detection - - ToDo: this a placeholder for other more specific concepts (add these relationships) - - - - - - - - Digital histology - - - - - - - - - - - - - - - - - Distance transform - - - - - - - - - Edge detection - - - - - - - - - - Electron microscopy - - ToDo: topic:0611 - - - - - - - - - - - - - - - - Feature extraction - - SURF - Image labeling - Feature detection - - - - - - - - Fluorescent microscopy - - - - - - - - - Geometrical transform - - - - - - - - - - - - - - - - - High content screening - - hcs - - - - - - - - - - - - - - - - Illumination correction - - - - - - - - - Image - - - - - - - - - Image acquisition - - Camera - Imaging - - - - - - - - Image analysis - - General image analysis - - - - - - - - Batch processing - - - - - - - - - Image classification - - Object classification - Classification - Image clustering - - - - - - - - Image colocalization - - Manders coefficient - - - - - - - - Image decomposition - - - - - - - - - Image deconvolution - - - - - - - - - Image enhancement - - - - - - - - - Image filtering - - Gaussian - - - - - - - - Image geometry - - - - - - - - - Image histogram - - - - - - - - - Image measurement - - - - - - - - - Image metadata - - - - - - - - - Image processing - - Image postprocessing - - - - - - - - Image reconstruction - - - - - - - - - Image registration - Elastic alignment - - Image alignment - - - - - - - - Image restoration - - Image correction - Point spread function - PSF - - - - - - - - Image segmentation - - Interactive segmentation - Snakes - - - - - - - - Image skeletoning - - - - - - - - - Smoothing - - - - - - - - - Image stack - - - - - - - - - Image stitching - - - - - - - - - Image thresholding - - Thresholding - Clustering-based image thresholding - - - - - - - - Image tracing - - - - - - - - - Image tracking - - Tracking - Track processor - - - - - - - - Image transformation - - fft - - - - - - - - Image visualisation - - Rendering - Lookup table - - - - - - - - - - - - - - - - Interactive segmentation - - - - - - - - - Light-sheet microscopy - - Spim - - - - - - - - Light microscopy - - Brightfield - Fluorescence recovery after photobleaching - Frap - - - - - - - - Linear transformation - - Affine - - - - - - - - Local thresholding - - - - - - - - - Machine learning - - ToDo: topic:3316 - - - - - - - - Microscopy - - Slide scanner - ToDo: topic:3382 - - - - - - - - - - - - - - - - Morphological operation - - Morphology - Morphological image processing - - - - - - - - Neuron image analysis - - - - - - - - - - Add noise - - - - - - - - Object detection - - - - - - - - - Opening - - - - - - - - - Optical flow analysis - - - - - - - - - - - - - - - - - Particle extraction - - - - - - - - - Particle tracking - - - - - - - - - Pixel classification - - - - - - - - - Plotting - - - - - - - - - Principal component analysis - - - - - - - - - Projection - - Maximum projection - Maximum intensity projection - Minimum projection - Image projection - Mean projection - - - - - - - - Rotation - - - - - - - - - Shape features - - - - - - - - - Skeletonisation - - Medial axis - - - - - - - - Speed - - - - - - - - - Spot extraction - - Spot detection - - - - - - - - Statistics - - - - - - - - - Super-resolution microscopy - - palm - Photoactivated localization microscopy - - - - - - - - Texture extraction - - Inverse Difference Moment - - - - - - - - Texture features - - - - - - - - - - - - - - - - - Time-lapse data - - - - - - - - - Time series - - - - - - - - - Topology - - - - - - - - - - - - - - - - - Transform - - - - - - - - - Volume - - - - - - - - - Volume rendering - - - - - - - - - Warping - - - - - - - - - - - - - - - - - Wavelet transformation - - - - - - - - - Widefield microscopy - - - - - - - - - avi - - .avi - - - - - - - - csv - - - - - - - - - dat - - .dat - - - - - - - - hdf5 - - - - - - - - - hdr - - .hdr - - - - - - - - img - - .img - - - - - - - - ims - - .ims - - - - - - - - ism - - - - - - - - - jpg - - .jpg - - - - - - - - mpeg - - - - - - - - - raw - - .raw - - - - - - - - roi - - Region of interest - - - - - - - - scn - - .scn - - - - - - - - sm2 - - .sm2 - - - - - - - - sm3 - - .sm3 - - - - - - - - stk - - .stk - - - - - - - - tif - - - - - - - - - tiff - - .tiff - - - - - - - - txt - - .txt - - - - - - - - vsi - - .vsi - - - - - - - - xml - - .xml - - - - - - - - Data - - - - Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output. - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - http://semanticscience.org/resource/SIO_000088 - http://semanticscience.org/resource/SIO_000069 - "http://purl.obolibrary.org/obo/IAO_0000030" - "http://purl.obolibrary.org/obo/IAO_0000027" - Data set - Data record - beta12orEarlier - http://wsio.org/data_002 - http://purl.org/biotop/biotop.owl#DigitalEntity - http://www.ifomis.org/bfo/1.1/snap#Continuant - Datum - - - - - Data set - EDAM does not distinguish the multiplicity of data, such as one data item (datum) versus a collection of data (data set). - - - - - EDAM does not distinguish a data record (a tool-understandable information artefact) from data or datum (its content, the tool-understandable encoding of an information). - Data record - - - - - Datum - EDAM does not distinguish the multiplicity of data, such as one data item (datum) versus a collection of data (data set). - - - - - - - - - - Format - - - http://en.wikipedia.org/wiki/File_format - http://purl.org/biotop/biotop.owl#MachineLanguage - File format - Data model - http://www.onto-med.de/ontologies/gfo.owl#Symbol_structure - Exchange format - "http://purl.obolibrary.org/obo/IAO_0000098" - http://semanticscience.org/resource/SIO_000612 - http://semanticscience.org/resource/SIO_000618 - beta12orEarlier - http://www.ifomis.org/bfo/1.1/snap#Continuant - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#quality - "http://purl.org/dc/elements/1.1/format" - http://wsio.org/compression_004 - A defined way or layout of representing and structuring data in a computer file, blob, string, message, or elsewhere. - http://en.wikipedia.org/wiki/List_of_file_formats - http://www.ifomis.org/bfo/1.1/snap#Quality - Data format - http://purl.org/biotop/biotop.owl#Quality - The main focus in EDAM lies on formats as means of structuring data exchanged between different tools or resources. The serialisation, compression, or encoding of concrete data formats/models is not in scope of EDAM. Format 'is format of' Data. - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - - - - - A defined data format has its implicit or explicit data model, and EDAM does not distinguish the two. Some data models however do not have any standard way of serialisation into an exchange format, and those are thus not considered formats in EDAM. (Remark: even broader - or closely related - term to 'Data model' would be an 'Information model'.) - Data model - - - - - File format denotes only formats of a computer file, but the same formats apply also to data blobs or exchanged messages. - File format - - - - - - - - - - Operation - - A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs). - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - Computational tool - Function - http://purl.org/biotop/biotop.owl#Function - http://www.ifomis.org/bfo/1.1/snap#Function - http://en.wikipedia.org/wiki/Function_(mathematics) - Computational method - http://semanticscience.org/resource/SIO_000017 - http://www.ebi.ac.uk/swo/SWO_0000003 - Mathematical operation - sumo:Function - beta12orEarlier - Process - Computational operation - Computational subroutine - http://semanticscience.org/resource/SIO_000649 - Special cases are: a) An operation that consumes no input (has no input arguments). Such operation is either a constant function, or an operation depending only on the underlying state. b) An operation that may modify the underlying state but has no output. c) The singular-case operation with no input or output, that still may modify the underlying state. - http://www.ifomis.org/bfo/1.1/span#Process - http://www.ifomis.org/bfo/1.1/snap#Continuant - http://onto.eva.mpg.de/ontologies/gfo-bio.owl#Method - Computational procedure - Mathematical function - Lambda abstraction - Function (programming) - http://www.onto-med.de/ontologies/gfo.owl#Process - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#quality - http://wsio.org/operation_001 - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#process - http://www.ifomis.org/bfo/1.1/snap#Quality - http://www.onto-med.de/ontologies/gfo.owl#Function - http://en.wikipedia.org/wiki/Function_(computer_science) - http://en.wikipedia.org/wiki/Subroutine - - - - - Operation is a function that is computational. It typically has input(s) and output(s), which are always data. - Function - - - - - Computational tool - Computational tool provides one or more operations. - - - - - Process can have a function (as its quality/attribute), and can also perform an operation with inputs and outputs. - Process - - - - - - - - - - Topic - http://purl.org/biotop/biotop.owl#Quality - http://bioontology.org/ontologies/ResearchArea.owl#Area_of_Research - http://www.onto-med.de/ontologies/gfo.owl#Category - http://www.ifomis.org/bfo/1.1/snap#Quality - http://www.onto-med.de/ontologies/gfo.owl#Perpetuant - A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other. - http://www.loa-cnr.it/ontologies/DOLCE-Lite.owl#quality - beta12orEarlier - http://www.ifomis.org/bfo/1.1/snap#Continuant - sumo:FieldOfStudy - http://onto.eva.mpg.de/ontologies/gfo-bio.owl#Method - - - - - - - - -