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Top 7 biobakery open source projects

bioBakery tools for meta'omic profiling

✭ 142

shell Dockerfile python Batchfile ruby devops tools biobakery

Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles

✭ 20

r machine-learning tools public metagenomics bioconductor microbial-communities metabolomics microbiome multi-omics biobakery metabolite-prediction metabolite-compounds

graphlan

High-quality circular representations of taxonomic and phylogenetic trees

✭ 45

python tools phylogenetic-trees biobakery taxonomic-trees circular-visualization

kneaddata

Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.

✭ 52

python quality-control tools public bowtie2 biobakery kneaddata

biobakery workflows

bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.

✭ 60

python r wdl private analysis-workflows biobakery

humann

HUMAnN 3.0 is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).

✭ 95

python shell tools public biobakery

Maaslin2

MaAsLin2: Microbiome Multivariate Association with Linear Models

✭ 76

r tools public metagenomics bioconductor repeated-measures microbiome false-discovery-rate biobakery differential-abundance-analysis multiple-covariates

1-7 of 7 biobakery projects