Package biolockj.module.implicit.qiime

This package contains BioModules that are implicitly added to QIIME pipeline as needed.

See: Description

Class Summary

Class	Description
BuildQiimeMapping	This BioModule converts the metadata file into a tab delimited QIIME mapping file (if provided). The QIIME mapping file is validated by calling QIIME script validate_mapping_file.py
MergeQiimeOtuTables	This BioModule will run immediately after QiimeClosedRefClassifier if multiple otu_table.biom files were created.
QiimeClassifier	This BioModule generates the bash script used to create QIIME summary scripts, taxonomy-level reports, and add alpha diversity metrics (if configured) to the metadata file. For a complete list of available metrics, see: http://scikit-bio.org/docs/latest/generated/skbio.diversity.alpha.html

Package biolockj.module.implicit.qiime Description

This package contains BioModules that are implicitly added to QIIME pipeline as needed.

• BioModule BuildQiimeMapping is added to every QIIME pipeline immediately before the configured QIIME classifier module to convert the metadata file into a valid QIIME mapping file.
• BioModule MergeQiimeOtuTables is added after QiimeClosedRefClassifier if the samples are configured to be classified in parallel batches.