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biocore

Login: biocore

Company: null

Location: Cyberspace

email:

Blog: http://biocore.github.io/

Members

Repositories

American-Gut: American Gut open-access data and IPython notebooks
american-gut-rest: RESTful interface into the American Gut data
american-gut-web: The website for the American Gut Project participant portal
basespace-qiime: QIIME's BaseSpace App
biocore.github.io: null
biom-format: The Biological Observation Matrix (BIOM) Format Project
burrito: Python framework for controlling command-line applications.
burrito-fillings: Application controllers for command line bioinformatics applications
calour: exploratory and interactive microbiome analyses based on heatmaps
cmi-workshops: null
conda-recipes: conda recipes for bioinformatic tools like blast+, infernal, etc.
corrome: Benchmarking cross correlations
deblur: Deblur is a greedy deconvolution algorithm based on known read error profiles.
dsFDR: descrete False Discovery Rate method
emp: Code repository of the Earth Microbiome Project.
emperor: Emperor a tool for the analysis and visualization of large microbial ecology datasets
empress: A very fast and scalable phylogenetic visualization viewer
empress: A very fast and scalable phylogenetic visualization viewer
Evident: Elucidating sampling effort for microbial analysis studies
eviiom: Evidence BIOM
FastUnifrac: Repository for the FastUnifrac site code.
genome-subsampler: Statistical and empirical subsampling of reference genomes
gneiss: compositional data analysis and visualization toolbox
hclust-benchmarks: A benchmarking repository for hierarchical clustering methods
horizomer: Workflow for detecting genome-wide horizontal gene transfers
Keemei: Validate tabular bioinformatics file formats in Google Sheets
Keemei: Validate tabular bioinformatics file formats in Google Sheets
labadmin: Administration website for the Knight Lab
mds-approximations: Multidimensional scaling algorithms for microbiology-ecology datasets.
metoo: Public prototype exploring ideas for QIIME2
micronota: annotation pipeline for microbial genomes and metagenomes
microprot: structural annotation pipeline for microbial genomes and metagenomes
mustached-octo-ironman: Easy dispatched compute in a Tornado environment
my-microbes: A set of tools for delivering personal microbiome results to individuals participating in microbiome sequencing studies.
oecophylla: shotgun pipeline
empress: A very fast and scalable phylogenetic visualization viewer
empress: A very fast and scalable phylogenetic visualization viewer
PipeClust: MPI-based sequence clusterer
Platypus-Conquistador: Confirming specific taxonomic groups within your samples.
pynast: Python Nearest Alignment Space Termination tool (PyNAST): Official repository for software and unit tests
pyqi: Tools for developing and testing command line interfaces in Python.
q2-american-gut: A QIIME2 plugin for working with and processing American Gut data
q2-fragment-insertion: QIIME2 plugin for fragment insertion
q2-pressius: A QIIME2 plugin for benchmarking high precision genome matching from amplicon data
qiime: Official QIIME 1 software repository. QIIME 2 (https://qiime2.org) has succeeded QIIME 1 as of January 2018.
qiime-default-reference: Default reference data files for use with QIIME.
qiime-workshops: Materials for biocore organized workshops
qiita: Qiita - A multi-omics databasing effort
redbiom: Sample search by metadata and features
sage-emperor: Emperor implementation in the SAGE2 framework
scikit-bio: scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.
scikit-bio-cookbook: Recipes for bioinformatics analyses with scikit-bio
scikit-bio-presentations: Repository of presentations about scikit-bio.
scikit-bio-rfcs: Request For Comments (RFCs) for scikit-bio.
sequence-benchmarks: null
SitePainter: A tool for exploring biogeographical patterns
sortmerna: SortMeRNA: a sequence analysis tool for filtering, mapping and clustering NGS reads.
StrainDB: StrainDB: A database to store strain genomes
tax2tree: Automated taxonomy decoration onto a tree
taxster: taxster: assigning taxonomy to organisms you've never even heard of
tcga: Microbial analysis in TCGA data
unifrac: null
vcf-to-biom: Tools for loading genomic variant data into BIOM format
verman: Python module version information
wetlab-assistant: null

This work is supported by the National Institutes of Health's National Center for Advancing Translational Sciences, Grant Number U24TR002306. This work is solely the responsibility of the creators and does not necessarily represent the official views of the National Institutes of Health.