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Whole Genome Sequencing Python Packages

Python packages with the GitHub topic whole-genome-sequencing. Sorted by relevance, with stars and monthly downloads.
ShujiaHuang
ilus

A lightweight and handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis by using GATK and Sentieon. 一个基于 GATK 和 Sentieon 的简易且全面的 WGS/WES 分析流程生成器.

866 143 36
BesenbacherLab
lionheart

LIONHEART detects cancer from whole genome sequenced plasma cell-free DNA.

751 11 3
DoubleHelixApp
doublehelix

Genomic data manipulation tool

704 6 0
frichter
ore

Associate outliers with rare variation

646 2 0
KalinNonchev
gnomad-db

Scalable SQLite database for fast querying of gnomAD variant annotations (allele frequency, depth, population metrics). Supports gnomAD v2-v4, WGS and WES.

426 52 12
KCCG
mitywgs

mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data

317 44 6
USDA-VS
vsnpdev

vSNP -- validate SNPs

285 23 12
p69180
handygenome

An interacitve python interface for inspection of somatic mutations

246 1 0
pablo-aja-macaya
arvia

ARVIA (Antibiotic Resistance Variant Identifier for Pseudomonas aeruginosa) takes single-end/paired-end reads and/or assemblies to perform exhaustive variant calling of genes related to antibiotic resistance in Pseudomonas aeruginosa.

181 1 0
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