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Username    biobakery
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16 projects

metawibele

Last released

MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiome

humann

Last released

HUMAnN: The HMP Unified Metabolic Analysis Network, version 3

HAllA

Last released

HAllA: Hierarchical All-against All Association Testing

lefse

Last released

LEfSe determines the features (organisms, clades, operational taxonomic units, genes, or functions) most likely to explain differences between classes by coupling standard tests for statistical significance with additional tests encoding biological consistency and effect relevance.

MetaPhlAn

Last released

MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level. With the newly added StrainPhlAn module, it is now possible to perform accurate strain-level microbial profiling.

biobakery-workflows

Last released

bioBakery workflows: A collection of meta'omic analysis workflows

kneaddata

Last released

anadama2

Last released

AnADAMA2: Another Automated Data Analysis Management Application 2

PhyloPhlAn

Last released

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes

export2graphlan

Last released

export2graphlan is a conversion software tool for producing both annotation and tree file for GraPhlAn

graphlan

Last released

GraPhlAn is a software tool for producing high-quality circular representations of taxonomic and phylogenetic trees. GraPhlAn focuses on concise, integrative, informative, and publication-ready representations of phylogenetically- and taxonomically-driven investigation.

panphlan

Last released

PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition and *in-vivo* transcriptional activity of individual strains in metagenomic samples. PanPhlAn’s ability for strain-tracking and functional analysis of unknown pathogens makes it an efficient tool for culture-free infectious outbreak epidemiology and microbial population studies.

shortbred

Last released

ShortBRED: a system for profiling protein families of interest at very high specificity in shotgun meta’omic sequencing data

humann2

Last released

HUMAnN2: The HMP Unified Metabolic Analysis Network 2

ppanini

Last released

PPANINI: Prioritization and Prediction of functional Annotations for Novel and Important genes via automated data Network Integration.

waafle

Last released

WAAFLE: a Workflow to Annotate Assemblies and Find LGT Events

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