Genomics Data Python Packages

wags-tails

Data acquisition tools for Wagnerds

genomic-benchmarks

Benchmarks for classification of genomic sequences

bioquik

Fast FM-index toolkit for CG-anchored DNA motif counting in FASTA files with parallel processing and optional visualization.

pandas-genomics

Pandas ExtensionDtypes for dealing with genomics data

haplodynamics

A python library to develop genomic data simulators

compositional

Python package for compositional data analysis including CLR/ILR, proportionality, partial correlation with basis shrinkage, and visualizations.

divbrowse

A web application for interactive visualization and exploratory data analysis of variant call matrices

python-outbreak-info

Python interface to Outbreak.info, powered by GISAID

ensembl-variant-lookup

a user-friendly interface for searching individual variants, batch queries, and exploring gene regions from the Ensembl database.

gdc-api-wrapper

Genomic Data Commons API wrapper

ggr-cwl-ipynb-gen

Jupyter notebook generator to download and execute the processing files for GGR related datasets

python-outbreak-data

Python package to access the genomics and epidemiology data and Research Library metadata compiled and standardized on outbreak.info