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@blekhmanlab

Blekhman Lab

Microbiome research at the University of Chicago

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  1. rxivist rxivist Public archive

    API providing access to papers and authors scraped from biorxiv.org

    Python 58 11

  2. host_gene_microbiome_interactions host_gene_microbiome_interactions Public

    Analysis framework for integrating gut microbiome and host gene expression data

    R 32 12

  3. biomehorizon biomehorizon Public

    Plot microbiome time series in parallel

    R 25 3

  4. hominid hominid Public

    Hominid: host-microbiome interaction identification

    Python 16 3

  5. rxivist_web rxivist_web Public archive

    Web application for Rxivist, the site that makes it easier to find the most talked-about papers on bioRxiv.org

    Smarty 10 4

  6. MicroBioMap MicroBioMap Public

    R package for fetching and parsing data of the Human Microbiome Compendium

    R 8 4

Repositories

Showing 10 of 18 repositories
  • compendium Public

    Metadata ingest service

    blekhmanlab/compendium’s past year of commit activity
    Python 2 Apache-2.0 0 11 0 Updated Feb 17, 2025
  • snakemake-compendium Public

    Human Microbiome Compendium processing pipeline

    blekhmanlab/snakemake-compendium’s past year of commit activity
    R 0 0 5 0 Updated Feb 17, 2025
  • docker_dada2 Public

    Docker convenience image containing R and the DADA2 package (plus dependencies), used for processing amplicon data.

    blekhmanlab/docker_dada2’s past year of commit activity
    Dockerfile 0 2 1 0 Updated Feb 12, 2025
  • compendium_website Public

    Website for the Human Microbiome Compendium

    blekhmanlab/compendium_website’s past year of commit activity
    TypeScript 1 1 0 1 Updated Jan 28, 2025
  • MicroBioMap Public

    R package for fetching and parsing data of the Human Microbiome Compendium

    blekhmanlab/MicroBioMap’s past year of commit activity
    R 8 4 8 0 Updated Jan 24, 2025
  • compendium_v1 Public

    Code associated with the first publication describing the Human Microbiome Compendium

    blekhmanlab/compendium_v1’s past year of commit activity
    R 0 0 0 0 Updated Sep 9, 2024
  • hominid Public

    Hominid: host-microbiome interaction identification

    blekhmanlab/hominid’s past year of commit activity
    Python 16 MIT 3 2 1 Updated Jun 17, 2024
  • milk_infant_microbiome Public

    Project on breast milk and infant gut microbiome

    blekhmanlab/milk_infant_microbiome’s past year of commit activity
    0 GPL-3.0 1 0 0 Updated Jan 25, 2024
  • snakemake-template Public template

    Quickstart for building out a new snakemake pipeline

    blekhmanlab/snakemake-template’s past year of commit activity
    Python 0 0 1 0 Updated Nov 16, 2023
  • biomehorizon Public

    Plot microbiome time series in parallel

    blekhmanlab/biomehorizon’s past year of commit activity
    R 25 3 5 0 Updated Nov 7, 2023
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