mortonjt

q2stats-workshops

Repository of qiime2 workshops to explore microbial ecology

gneiss

ferrets

biom-format

The Biological Observation Matrix (BIOM) Format Project

BIRDMAn

Bayesian Inferential Regression for Differential Microbiome Analysis

catvae-analyses

cmdstan

CmdStan, the command line interface to Stan

community-simulator

Simulate microbial community batch culture experiments.

deep_blast_training

differential-abundance-intro

driver

Utility Functions from Justin Silverman

empress-analyses

Analyses, figures, and artifacts for Empress.

feather

Feather: fast, interoperable binary data frame storage for Python, R, and more powered by Apache Arrow

ffq

A command line tool that makes it easier to find sequencing data from the SRA / GEO / ENA.

fido

Multinomial Logistic-Normal Models (really fast)

gemelli

Gemelli is a toolbox for running both Robust Aitchison PCA (RPCA) and Compositional Tensor Factorization (CTF) on sparse compositional omics datasets.

metvae_training

MLRepo

PyTorch-LBFGS

A PyTorch implementation of L-BFGS.

q2-batch

Quick and dirty batch effect estimation in qiime2

q2-bayes-types

qiime2 repository for Bayesian types

q2-decontam

q2-feature-cv

To make cross validation on qiime2 feature tables seamless!

q2-gneiss

QIIME2 plugin for Gneiss

q2-revert

Converting hashes back to sequences

q2-types

Definitions of common QIIME 2 types.

qiime2

Official repository for the QIIME 2 framework

scipy

Scipy library main repository

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

woltka

Web of Life Toolkit App