Here are
19 public repositories
matching this topic...
This repository contains data and code for our analysis of the genome of a Plasmodium falciparum strain with reduced susceptibility to Artemisinin-Based Combination Therapy (ACT) drugs. We performed whole-genome sequencing of the HSOG3 clinical isolate and compared it with a large dataset of global P. falciparum samples.
Updated
Dec 29, 2023
Python
Python utility functions for reading GATK Report files into pandas DataFrames
Updated
Mar 21, 2018
Python
Convert NGS reads to analysis ready variants with GATK's ReadsPipelineSpark
Updated
Jun 6, 2022
Python
GATK variant calling for RNASeq
Updated
Jan 21, 2022
Python
Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples
Updated
Apr 16, 2024
Python
GATK and VARSCAN analysis pipeline
Updated
Jan 20, 2017
Python
Python package to parse GATK Output and extract summary statistics at mbq 0,10,20,30 and variant evaluation metrics
Updated
Jul 30, 2021
Python
An automated tool for processing whole-exome sequencing data
Updated
Apr 21, 2020
Python
A public, web-based homozygosity mapping tool
Updated
May 19, 2014
Python
Variant calling + processing pipline using GATK based in Snakemake
Updated
May 31, 2018
Python
VariantCaller is a wrapper for the 2022 gatk & bcftools best practices + phasing with WhatsHap.
Updated
Apr 29, 2022
Python
Diablo G25 - is a tool for conversion of VCF file to 23AndMe format and calculation of admixture scores from it.
Updated
Dec 2, 2022
Python
🐍🔧 Snakemake wrappers for GATK.
Updated
May 27, 2021
Python
Collecting Genotypes from ENA and make their SNPs
Updated
Sep 27, 2021
Python
Multi-bAse Codon-Associated variant Re-annotatiON (MACARON)
Updated
May 18, 2020
Python
Generates CWL files from the GATK documentation
Updated
Aug 1, 2018
Python
Reusable and maintained Luigi tasks to incorporate in bioinformatics pipelines
Updated
Aug 19, 2024
Python
Exome/Capture/RNASeq Pipeline Implementation using snakemake
Updated
Mar 26, 2018
Python
This Snakemake pipeline implements the GATK best-practices workflow
Updated
Jun 8, 2023
Python
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