biobakery
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MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data
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May 23, 2024 - Python
AnADAMA2 is the next generation of AnADAMA (Another Automated Data Analysis Management Application). AnADAMA is a tool to capture your workflow and execute it efficiently on your local machine or in a grid compute environment (ie. sun grid engine or slurm).
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May 15, 2024 - Python
bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.
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Apr 12, 2024 - Python
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
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Apr 11, 2024 - Python
High-quality circular representations of taxonomic and phylogenetic trees
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Mar 26, 2024 - Python
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Mar 26, 2024 - HTML
The CCREPE (Compositionality Corrected by REnormalizaion and PErmutation) package is designed to assess the significance of general similarity measures in compositional datasets.
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Mar 26, 2024 - R
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Mar 26, 2024 - TeX
MMUPHin: Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies
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May 19, 2024 - R
MaAsLin2: Microbiome Multivariate Association with Linear Models
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Mar 26, 2024 - R
ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then search for these markers in metagenomic data and determine the presence and abundance of the protein families of interest.
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Mar 26, 2024 - Python
Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
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Mar 26, 2024 - R
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