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speedseq
A flexible framework for rapid genome analysis and interpretationsvtools
Tools for processing and analyzing structural variants.svtyper
Bayesian genotyper for structural variantssv-pipeline
Pipeline for structural variation detection in cohortsgtex
GTEx analysis scriptscompetitive-alignment
long-read-validation
Long-read validation of BEDPE structural variationassembly_validation
fastqtl
Fork of FastQTL for SVs1kg_sv_comparison
sv_paper_042020
supplementary data for abel et al paperextract_sv_reads
Tool for extracting splitter or discordant reads from a BAM or CRAM file.protocols
Hall lab analysis protocolsio
i/o toolscshl_sv_2016
bamkit
Tools for common BAM file manipulationscromwell-deployment
Scripts and configuration to setup a Cromwell deploymenttenx-gcp
Run 10X Genomics Software in Google Cloud Deploymentsgatk4-germline-snv-pipeline
GATK4 pipeline for joint variant calling (SNP/INDELs)lumpy-merge
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