@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 403 171

  2. qiita

    Qiita - A multi-omics databasing effort

    Python 52 54

  3. gneiss

    compositional data analysis and visualization toolbox

    Jupyter Notebook 16 18

  • Qiita - A multi-omics databasing effort

    Python 52 54 BSD-3-Clause Updated Aug 14, 2018
  • scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.

    Python 403 171 Updated Aug 14, 2018
  • A very fast and scalable phylogenetic visualization viewer

    JavaScript 4 BSD-3-Clause Updated Aug 13, 2018
  • exploratory and interactive microbiome analyses based on heatmaps

    Python 7 8 BSD-3-Clause 1 issue needs help Updated Aug 13, 2018
  • The website for the American Gut Project participant portal

    Python 4 21 BSD-3-Clause Updated Aug 9, 2018
  • Deblur is a greedy deconvolution algorithm based on known read error profiles.

    Python 41 34 BSD-3-Clause 1 issue needs help Updated Aug 9, 2018
  • Hierarchical orderings for mass spectrometry data

    1 BSD-2-Clause Updated Aug 7, 2018
  • Emperor a tool for the analysis and visualization of large microbial ecology datasets

    JavaScript 46 34 Updated Aug 7, 2018
  • C++ 3 4 BSD-3-Clause Updated Jul 31, 2018
  • 1 7 Updated Jul 26, 2018
  • Automated taxonomy decoration onto a tree

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

    Python 1 4 BSD-3-Clause Updated Jul 19, 2018
  • SortMeRNA: next-generation sequence filtering and alignment tool

    C++ 43 14 GPL-3.0 Updated Jul 17, 2018
  • Sample search by metadata and features

    Python 10 7 Updated Jul 10, 2018
  • conda recipes for bioinformatic tools like blast+, infernal, etc.

    Python 5 11 Updated Jun 20, 2018
  • A QIIME2 plugin for working with and processing American Gut data

    Python 1 5 BSD-3-Clause Updated Jun 13, 2018
  • compositional data analysis and visualization toolbox

    Jupyter Notebook 16 18 7 issues need help Updated Jun 12, 2018
  • shotgun pipeline

    Python 6 17 MIT Updated Jun 4, 2018
  • Workflow for detecting genome-wide horizontal gene transfers

    Python 6 8 BSD-3-Clause Updated May 29, 2018
  • Code repository of the Earth Microbiome Project.

    Jupyter Notebook 59 31 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
  • The Biological Observation Matrix (BIOM) Format Project

    Python 44 61 Updated Mar 27, 2018
  • Microbial analysis in TCGA data

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

    Python 11 9 BSD-3-Clause 2 issues need help Updated Feb 23, 2018
  • Official QIIME 1 software repository. QIIME 2 (https://qiime2.org) has succeeded QIIME 1 as of January 2018.

    Python 235 231 GPL-2.0 Updated Jan 23, 2018
  • Python Nearest Alignment Space Termination tool (PyNAST): Official repository for software and unit tests

    Python 6 5 Updated Jan 23, 2018
  • structural annotation pipeline for microbial genomes and metagenomes

    Python 4 BSD-3-Clause Updated Dec 18, 2017
  • Administration website for the Knight Lab

    Python 3 13 Updated Oct 13, 2017