ADGM

ADGM's Stars

• stebliankin/merrci

  Pipeline that Combines Metagenome, Resistome, Replicome for Causal Inferencing (MERRCI)

  Language:Jupyter Notebook2

• tinglab/kLDM

  Inferring multiple metagenomic association networks based on variation of environmental factors

  Language:C++2

• ne1s0n/coding_excercises

  A public repo for slides and exercise for the "Introduction to deep learning for biologists" Physalia course, by Nelson Nazzicari and Filippo Biscarini

  Language:Jupyter Notebook1811

• citation-style-language/styles

  Official repository for Citation Style Language (CSL) citation styles.

  Language:Ruby3.2k3.7k

• mikemc/speedyseq

  Speedy versions of phyloseq functions

  Language:R456

• angelolimeta/Gut-microbiome-immunotherapy

  Meta analysis of studies looking at differences in gut microbiome composition for responders/non-responders of cancer immunotherapy.

  Language:HTML82

• EvaYiwenWang/Managing_batch_effects

  Language:R137

• gavinsimpson/ggvegan

  ggplot-based plots for vegan

  Language:R10930

• nchitale/q2-feast

  Language:R3

• tyjo/luminate

  Denoising longitudinal microbiome data.

  Language:Python72

• borenstein-lab/MIMOSA

  Model-based Integration of Metabolite Observations and Species Abundances

  Language:R238

• nickdelgrosso/IFOM-Python-Workshop2019

  Materials from a 3-Day Introduction to Python workshop held at the IFOM Institute in Milan, Italy.

  Language:Jupyter Notebook21

• KinoLien/gitzip

  It can make sub-folder/sub-directory of github repository as zip and download it.

  Language:JavaScript55893

• JingZhai63/VCselection

  VCselection for Microbiome Taxonomic Data

  Language:Julia2

• scikit-bio/scikit-bio

  scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.

  Language:Python877267

• biocore/American-Gut

  American Gut open-access data and IPython notebooks

  Language:Jupyter Notebook10781

• microbiome/microbiome

  microbiome R package

  Language:R28354

• biocore/gneiss

  compositional data analysis toolbox

  Language:Jupyter Notebook5528

• biocore/tax2tree

  Automated taxonomy decoration onto a tree

  Language:Python1410

• OHMI-ontology/OHMI

  OHMI: The Ontology of Host-Microbiome Interactions

  Language:Makefile126

• reptalex/phylofactor

  Language:R279

• qiime2/q2-fragment-insertion

  Language:Python1317

• smirarab/sepp-refs

  52

• borenstein-lab/burrito

  A visualization tool for exploratory data analysis of metagenomic data

  Language:JavaScript359

• caporaso-lab/autism-fmt1

  Language:Jupyter Notebook86

• cozygene/FEAST

  Fast expectation maximization for microbial source tracking

  Language:R11560

• cozygene/MTV-LMM

  Scalable and computationally efficient tool to identify and predict autoregressive taxa

  Language:R92

• LangilleLab/microbiome_helper

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

  Language:Python431205

• jlugomar/longitudinal_microbiome_analysis_public

  Language:MATLAB167

• Lagkouvardos/Rhea

  A set of R scripts for the analysis of microbial profiles

  Language:R3914