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microbiome_helper

LangilleLab•PUBLIC

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A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.

GNU General Public License v3.0

Created on Dec 16, 2014

Updated on Apr 10, 2026

Stars

459

Forks

202

Watchers

459

Open Issues

Repository Health Score

💛

72/100

Good

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Active development - updated this week

30/30

100%

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Recent Commits

Update parse_TaxonomyFunction_single.py

R-Wright-1•1 month ago

2a405bdView on GitHub

Add files via upload

Robyn Wright•2 months ago

f41b1f3View on GitHub

Rename microbiome_helper2/run_TaxonomyFunctionSearchMegan.pl to microbiome_helper2/MMSeqs2_functional_annotation/run_TaxonomyFunctionSearchMegan.pl

Robyn Wright•2 months ago

5a7a5ceView on GitHub

Rename microbiome_helper2/run-mmseqs-jobfiles.sh to microbiome_helper2/MMSeqs2_functional_annotation/run-mmseqs-jobfiles.sh

Robyn Wright•2 months ago

e4a0657View on GitHub

Rename microbiome_helper2/pick_uniref_top_hit.py to microbiome_helper2/MMSeqs2_functional_annotation/pick_uniref_top_hit.py

Robyn Wright•2 months ago

8ed3ddaView on GitHub

Rename microbiome_helper2/parse_TaxonomyFunction.py to microbiome_helper2/MMSeqs2_functional_annotation/parse_TaxonomyFunction.py

Robyn Wright•2 months ago

b01f749View on GitHub

Rename microbiome_helper2/descrip_humann2.py to microbiome_helper2/MMSeqs2_functional_annotation/descrip_humann2.py

Robyn Wright•2 months ago

4ad938dView on GitHub

Rename microbiome_helper2/convert_stratifiedRpkm_to_SankeyFormat.py to microbiome_helper2/MMSeqs2_functional_annotation/convert_stratifiedRpkm_to_SankeyFormat.py

Robyn Wright•2 months ago

01ceff4View on GitHub

Rename microbiome_helper2/convert_picrust2_to_stratified_output_format.py to microbiome_helper2/MMSeqs2_functional_annotation/convert_picrust2_to_stratified_output_format.py

Robyn Wright•2 months ago

80759cbView on GitHub

Rename microbiome_helper2/add_COG_descriptions.py to microbiome_helper2/MMSeqs2_functional_annotation/add_COG_descriptions.py

Robyn Wright•2 months ago

138a283View on GitHub

Rename microbiome_helper2/add_6levelsTaxonomy_to_Kraken2Results.py to microbiome_helper2/MMSeqs2_functional_annotation/add_6levelsTaxonomy_to_Kraken2Results.py

Robyn Wright•2 months ago

cc59e36View on GitHub

Delete microbiome_helper2/MMSeqs2_functional_annotation

Robyn Wright•2 months ago

81e9a3dView on GitHub

Delete microbiome_helper2/README.md

Robyn Wright•2 months ago

cda1fdcView on GitHub

Create MMSeqs2_functional_annotation

Robyn Wright•2 months ago

9b9685cView on GitHub

Add MMSeqs2 pipeline files