From 0c411338fdaef108292018f46aa5c1a8ffac8282 Mon Sep 17 00:00:00 2001 From: Jon Ison Date: Thu, 20 Oct 2016 00:21:05 +0100 Subject: [PATCH] Latest updates --- EDAM-bioimaging.owl | 224 +++++++++++++++++++++++++++++++++++++--------------- 1 file changed, 160 insertions(+), 64 deletions(-) diff --git a/EDAM-bioimaging.owl b/EDAM-bioimaging.owl index 518fae3..7dbfd01 100644 --- a/EDAM-bioimaging.owl +++ b/EDAM-bioimaging.owl @@ -412,14 +412,14 @@ - OBO_REL:bearer_of 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 - true In very unusual cases. + true @@ -464,16 +464,16 @@ - true - In very unusual cases. + '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 - + - OBO_REL:has_participant - '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. + In very unusual cases. + true - + @@ -498,14 +498,14 @@ - OBO_REL:has_participant '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 - true In very unusual cases. + true @@ -568,8 +568,8 @@ - OBO_REL:quality_of 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 @@ -597,20 +597,20 @@ - true - In very unusual cases. + 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. - + - 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. - OBO_REL:function_of + true + In very unusual cases. - + - OBO_REL:inheres_in 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 @@ -657,14 +657,14 @@ - true In very unusual cases. + true - OBO_REL:participates_in '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 @@ -739,8 +739,8 @@ - true In very unusual cases. + true @@ -832,11 +832,10 @@ - + - - Batch processing - + + @@ -881,6 +880,8 @@ Colour + channel + rgb @@ -913,6 +914,14 @@ + + + + + + + + @@ -971,6 +980,7 @@ Edge detection + @@ -1015,6 +1025,15 @@ + + + + Geometrical transform + + + + + @@ -1033,6 +1052,14 @@ + + + + + + + + @@ -1072,12 +1099,22 @@ + + + + Batch processing + + + + + Image classification Object classification + Classification Image clustering @@ -1088,6 +1125,7 @@ Image colocalization + Manders coefficient @@ -1141,6 +1179,7 @@ + Image histogram @@ -1169,6 +1208,7 @@ Image processing + Image postprocessing @@ -1186,6 +1226,7 @@ Image registration + Elastic alignment Image alignment @@ -1198,8 +1239,8 @@ Image restoration Image correction - Point Spread Function - PSF + Point spread function + PSF @@ -1233,6 +1274,15 @@ + + + + Image stack + + + + + @@ -1288,6 +1338,8 @@ Image visualisation + Rendering + Lookup table @@ -1300,6 +1352,15 @@ + + + + Interactive segmentation + + + + + @@ -1325,7 +1386,7 @@ - Llinear transformation + Linear transformation Affine @@ -1345,7 +1406,7 @@ Machine learning - + ToDo: topic:3316 @@ -1375,6 +1436,7 @@ Morphological operation + Morphology Morphological image processing @@ -1393,6 +1455,7 @@ + Add noise @@ -1401,7 +1464,7 @@ Object detection - + @@ -1453,6 +1516,7 @@ + Pixel classification @@ -1479,7 +1543,13 @@ + Projection + Maximum projection + Maximum intensity projection + Minimum projection + Image projection + Mean projection @@ -1488,7 +1558,7 @@ Rotation - + @@ -1505,8 +1575,9 @@ - Skeletonization - + Skeletonisation + + Medial axis @@ -1520,20 +1591,12 @@ - - - - Spot detection - - - - - Spot extraction + Spot detection @@ -1563,6 +1626,7 @@ Texture extraction + Inverse Difference Moment @@ -1576,11 +1640,19 @@ + + + + + + + + Time-lapse data - + @@ -1589,7 +1661,7 @@ Time series - + @@ -1678,6 +1750,7 @@ avi + .avi @@ -1696,6 +1769,7 @@ dat + .dat @@ -1714,6 +1788,7 @@ hdr + .hdr @@ -1723,6 +1798,7 @@ img + .img @@ -1732,6 +1808,7 @@ ims + .ims @@ -1750,6 +1827,7 @@ jpg + .jpg @@ -1768,6 +1846,7 @@ raw + .raw @@ -1787,6 +1866,7 @@ scn + .scn @@ -1796,6 +1876,7 @@ sm2 + .sm2 @@ -1805,6 +1886,7 @@ sm3 + .sm3 @@ -1814,6 +1896,7 @@ stk + .stk @@ -1832,6 +1915,7 @@ tiff + .tiff @@ -1841,6 +1925,17 @@ txt + .txt + + + + + + + + vsi + + .vsi @@ -1850,6 +1945,7 @@ xml + .xml @@ -1878,20 +1974,20 @@ - 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 + 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 the multiplicity of data, such as one data item (datum) versus a collection of data (data set). - 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 - + - EDAM does not distinguish the multiplicity of data, such as one data item (datum) versus a collection of data (data set). Datum + EDAM does not distinguish the multiplicity of data, such as one data item (datum) versus a collection of data (data set). @@ -1929,17 +2025,17 @@ - File format denotes only formats of a computer file, but the same formats apply also to data blobs or exchanged messages. - File format - - - - 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 + + + @@ -1985,22 +2081,22 @@ - Process - Process can have a function (as its quality/attribute), and can also perform an operation with inputs and outputs. + Operation is a function that is computational. It typically has input(s) and output(s), which are always data. + Function - + - Computational tool provides one or more operations. Computational tool + Computational tool provides one or more operations. - Function - Operation is a function that is computational. It typically has input(s) and output(s), which are always data. + Process can have a function (as its quality/attribute), and can also perform an operation with inputs and outputs. + Process - +