Variation Python Packages

bioutils

provides common tools and lookup tables used primarily by the hgvs and uta packages

biocommons-seqrepo

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

hgvs

Python library to parse, format, validate, normalize, and map sequence variants according to HGVS Nomenclature (https://hgvs-nomenclature.org/).

seqrepo

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

biocommons-anyvar

Lightweight, portable variation registration and retrieval

msda

Library for multi-dimensional, multi-sensor, uni/multivariate time series data analysis, unsupervised feature selection, unsupervised deep anomaly detection, and prototype of explainable AI for anomaly detector

anyvar

AnyVar provides Python and REST interfaces to validate, normalize, generate identifiers, and register biological sequence variation according to the GA4GH Variation Representation standards.

seqrepo-rest-service

OpenAPI-based REST interface to biological sequences and sequence metadata