Topic: gatk Goto Github
Some thing interesting about gatk
Some thing interesting about gatk
gatk,A public, web-based homozygosity mapping tool
User: afreeorange
gatk,Toolbox for work with CloneHD application
User: alexanderkononov
gatk,Collecting Genotypes from ENA and make their SNPs
User: amirhoseinsafari
gatk,Official code repository for GATK versions 4 and up
Organization: broadinstitute
Home Page: https://software.broadinstitute.org/gatk
gatk,Miscellaneous pipelines for genomics computation analysis in a SGE HPC platform.
Organization: bu-isciii
gatk,Pipelines for SNVs and InDels calling (single sample and joint) in WEGS, WGS, and WES using GATK.
Organization: cerc-genomic-medicine
gatk,simple pipeline for processing exome sequencing data using BWA and GATK4
User: christacaggiano
gatk,Bash and Python pipelines and scripts from the Invertebrates & Microbiology Group at the Queensland University of Technology to help make data analysis easy.
User: cnoune
gatk,msgen: R functions for interfacing with the Microsoft Genomics service on Azure.
User: colbyford
Home Page: https://colbyford.medium.com/msgen-r-package-af752f5ef3eb
gatk,GATK RNA-Seq Variant Calling in Nextflow
Organization: crg-cnag
gatk,secondary analysis pipelines parallelized with apache spark
Organization: databricks
gatk,Learning the Variant Call Format
User: davetang
Home Page: https://davetang.github.io/learning_vcf_file/
gatk,
User: davetang
Home Page: http://www.nature.com/articles/sdata201623
gatk,:snake::wrench: Snakemake wrappers for GATK.
User: dohlee
gatk,A pipeline for variant calling of Exome using GATK best practice workflow
User: drveera
gatk,This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.
Organization: gatk-workflows
Home Page: https://dockstore.org/organizations/BroadInstitute/collections/GATKWorkflows
gatk,Workflows for whole-genome/exome sequencing data analysis
Organization: genemap-research
Home Page: https://genemap-research.github.io/docs/workflows/ngs/
gatk,High performance data storage for importing, querying and transforming variants.
Organization: genomicsdb
Home Page: https://genomicsdb.readthedocs.io
gatk,WDL-based pipelines
Organization: genomicsiter-developers
gatk,Whole Exome/Whole Genome Sequencing alignment pipeline
Organization: iarcbioinfo
gatk,An automated tool for processing whole-exome sequencing data
Organization: labbcb
Home Page: https://bcblab.org/hpexome/
gatk,Confirmation of which GATK4 versions go against VCF specifications and call missing GT as 0/0 instead of ./.
User: lpembleton
gatk,Python package to parse GATK Output and extract summary statistics at mbq 0,10,20,30 and variant evaluation metrics
User: lvn3668
gatk,Bioinformatics on GCP, AWS or Azure
User: lynnlangit
gatk,Variant calling pipeline for germline enrichment NGS data
User: mcgml
gatk,sysadmin tasks made easier
Organization: nucleomics-vib
gatk,Reusable and maintained Luigi tasks to incorporate in bioinformatics pipelines
Organization: pavlidislab
Home Page: https://bioluigi.readthedocs.io/en/stable/
gatk,Genome analysis pipeline that follows GATK best practices from Broad Institute
User: programmingprincess
gatk,Nextflow pipeline for GATK best practices (HaplotypeCaller)
User: rbpisupati
gatk,VariantCaller is a wrapper for the 2022 gatk & bcftools best practices + phasing with WhatsHap.
User: rhettrautsaw
gatk,Genome Analysis Toolkit
User: rrafiee
gatk,Supporting GATK4 on IBM Power architecture, including enablement, performance tuning and optimization.
User: ruzhuchen
gatk,Variant calling + processing pipline using GATK based in Snakemake
User: samleenz
gatk,Sentieon DNAseq
Organization: sentieon
gatk,GitHub for the SIB courses NGS - Genome variant analysis
Organization: sib-swiss
Home Page: https://sib-swiss.github.io/NGS-variants-training/
gatk,This Snakemake pipeline implements the GATK best-practices workflow
Organization: snakemake-workflows
gatk,This repository contains bash shell scripts
User: svsuresh
gatk,Diablo G25 - is a tool for conversion of VCF file to 23AndMe format and calculation of admixture scores from it.
User: thesergeypixel
gatk,Nextflow pipeline for the preprocessing of BAM files based on GATK best practices. Marking duplicates, realignment around indels, base quality score recalibration (BQSR) and reporting of metrics are optional to maintain flexibility for different use cases.
Organization: tron-bioinformatics
gatk,A nextflow pipeline implementing GATK's HaplotypeCaller best practices
Organization: tron-bioinformatics
gatk,Codes for exome sequencing class being taught by Tychele N. Turner, Ph.D.
User: tycheleturner
gatk,An Efficient Design of a Next Generation Sequencing pipeline with Apache Spark
User: vzzarr
Home Page: https://github.com/Vzzarr/NGS-SparkGATK/wiki
gatk,Multi-bAse Codon-Associated variant Re-annotatiON (MACARON)
User: waqasuddinkhan
Home Page: http://www.genmed.fr/images/publications/data/MACARON_GenMed.zip
gatk,Generates CWL files from the GATK documentation
Organization: wtsi-hgi
gatk,Some workflows I wrote for my phd projects
User: xukeren
Home Page: https://xukeren.github.io/phd-pipeline/
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