* myPhyloDB is a user-friendly web-interface for accessing and analyzing taxonomic data from multiple projects and/or sequencing runs. * The goal of myPhyloDB is to allow for easy comparisons and statistical analysis of microbial (i.e., fungi or bacteria) taxonomic abundance across projects, environments, and management scenarios. * myPhyloDB accepts mothur pre-analyzed data from any of its supported sequencing platforms. In addition, raw 454 and Illumina/MiSeq files may be uploaded and analyzed using a user customizable mothur pipeline. * Please visit our [website] (http://www.myphylodb.org) for additional information on how to run myPhyloDB.
* Installers for the current Linux and Windows stand-alone executables can be found [here] (http://www.ars.usda.gov/services/software/download.htm?softwareid=472). * Executables include all dependencies, allowing myPhyloDB to be run on computers without Python, mothur or R.
# Dependencies
Dependencies (and the source code provided here) are only required for development purposes. Most users should use the installers provided above.
####Linux systems Please see the 'Setup_notes' file for more details...
Python 2.7.6 or above
- Modules: CherryPy 4.0, Django 1.9.2, Django-allauth, PypeR 1.1.2, numPy 1.8.1, pandas 0.16.0, sciPy 0.14.0, simplejson 3.5.2, xlrd 0.9.4, xlutils 1.7.1
mothur reference files
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Example: [silva.seed_v119.align] (http://www.mothur.org/wiki/Taxonomy_outline)
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Installation folder: 'mothur/reference/align'
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Example: [gg_13_5_99.pds.tax] (http://www.mothur.org/wiki/Taxonomy_outline)
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Installation folder: 'mothur/reference/taxonomy'
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Example: [gg_13_5_99.fasta] (http://www.mothur.org/wiki/Taxonomy_outline)
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Installation folder: 'mothur/reference/template'
####Windows systems
Python 2.7.6 or above
- Modules: CherryPy 4.0, Django 1.9.2, Django-allauth, PypeR 1.1.2, numPy 1.8.1, pandas 0.16.0, sciPy 0.14.0, simplejson 3.5.2, xlrd 0.9.4, xlutils 1.7.1
mothur reference files
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Example: [silva.seed_v119.align] (http://www.mothur.org/wiki/Taxonomy_outline)
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Installation folder: 'mothur/reference/align'
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Example: [gg_13_5_99.pds.tax] (http://www.mothur.org/wiki/Taxonomy_outline)
-
Installation folder: 'mothur/reference/taxonomy'
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Example: [gg_13_5_99.fasta] (http://www.mothur.org/wiki/Taxonomy_outline)
-
Installation folder: 'mothur/reference/template'