biocommons

Login: biocommons

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Members

1. Reece Hart

Repositories

biocommons

Declares/reserves "biocommons" for namespace packages only; see other repos for specific functionality

biocommons.github.io

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biocommons.io

stream io helpers

biocommons.seqfetcher

fetch me a sequence pronto and don't ask me how

biocommons.seqrepo

non-redundant, compressed, journalled, file-based storage for biological sequences

bioutils

bioutils provides some common tools and lookup tables used primarly by the hgvs and uta packages

eutils

simplified searching, fetching, and parsing records from NCBI using their E-utilities interface

hgvs

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

hgvs-eval

automated evaluation suite to assess tools that manipulate HGVS formatted variants

hgvs-eval-old

framework for evaluating features of hgvs services

hgvs-installation-test

Verify that the supported installation method ('pip install --upgrade setuptools; pip install hgvs') works.

mirrors-ncbi

Makefile (of all things) to space-efficiently mirror selected NCBI resources

multifastadb

presents a collection of indexed fasta files as a single source

uta

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

uta-align

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