@biocore

biocore

Collaboratively developed bioinformatics software.

Pinned repositories

  1. scikit-bio

    scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.

    Python 413 175

  2. qiita

    Qiita - A multi-omics databasing effort

    Python 54 56

  3. gneiss

    compositional data analysis and visualization toolbox

    Jupyter Notebook 20 20

  • The Biological Observation Matrix (BIOM) Format Project

    Python 44 62 Updated Sep 25, 2018
  • Administration website for the Knight Lab

    Python 3 13 Updated Sep 24, 2018
  • scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.

    Python 413 175 Updated Sep 24, 2018
  • A very fast and scalable phylogenetic visualization viewer

    JavaScript 4 BSD-3-Clause Updated Sep 24, 2018
  • Qiita - A multi-omics databasing effort

    Python 54 56 BSD-3-Clause Updated Sep 24, 2018
  • SortMeRNA: next-generation sequence filtering and alignment tool

    C++ 45 15 GPL-3.0 Updated Sep 20, 2018
  • The website for the American Gut Project participant portal

    Python 4 21 BSD-3-Clause Updated Sep 19, 2018
  • Jupyter Notebook 1 BSD-3-Clause Updated Sep 18, 2018
  • Emperor a tool for the analysis and visualization of large microbial ecology datasets

    JavaScript 45 35 Updated Sep 17, 2018
  • Deblur is a greedy deconvolution algorithm based on known read error profiles.

    Python 45 35 BSD-3-Clause Updated Sep 16, 2018
  • conda recipes for bioinformatic tools like blast+, infernal, etc.

    Python 5 11 Updated Sep 14, 2018
  • shotgun pipeline

    Python 8 17 MIT Updated Sep 5, 2018
  • 1 Updated Aug 30, 2018
  • 1 7 Updated Aug 28, 2018
  • exploratory and interactive microbiome analyses based on heatmaps

    Python 7 8 BSD-3-Clause 1 issue needs help Updated Aug 24, 2018
  • Elucidating sampling effort for microbial analysis studies

    JavaScript 8 12 Updated Aug 23, 2018
  • compositional data analysis and visualization toolbox

    Jupyter Notebook 20 20 7 issues need help Updated Aug 22, 2018
  • Hierarchical orderings for mass spectrometry data

    Python 1 BSD-2-Clause Updated Aug 17, 2018
  • C++ 3 5 BSD-3-Clause Updated Jul 31, 2018
  • Automated taxonomy decoration onto a tree

    Python 3 9 BSD-3-Clause Updated Jul 19, 2018
  • QIIME2 plugin for fragment insertion

    Python 1 5 BSD-3-Clause Updated Jul 19, 2018
  • Sample search by metadata and features

    Python 10 7 Updated Jul 10, 2018
  • A QIIME2 plugin for working with and processing American Gut data

    Python 1 5 BSD-3-Clause Updated Jun 13, 2018
  • Workflow for detecting genome-wide horizontal gene transfers

    Python 7 8 BSD-3-Clause Updated May 29, 2018
  • Code repository of the Earth Microbiome Project.

    Jupyter Notebook 65 32 BSD-3-Clause Updated May 23, 2018
  • Multidimensional scaling algorithms for microbiology-ecology datasets.

    Python 2 5 Updated May 15, 2018
  • A QIIME2 plugin for benchmarking high precision genome matching from amplicon data

    Python BSD-3-Clause Updated May 4, 2018
  • descrete False Discovery Rate method

    Python 1 4 Updated Apr 15, 2018
  • Microbial analysis in TCGA data

    Python 1 8 BSD-3-Clause Updated Mar 2, 2018
  • annotation pipeline for microbial genomes and metagenomes

    Python 13 9 BSD-3-Clause 2 issues need help Updated Feb 23, 2018