hall-lab

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sv_paper_042020

 4  1
supplementary data for abel et al paper

cluster_intro

 2  0
Hall Lab Computing 101
C

speedseq

 305  115
A flexible framework for rapid genome analysis and interpretation

lumpy-sv

 0  1
lumpy: a general probabilistic framework for structural variant discovery

soup

 0  2
Catch-all for uncategorized or project-specific scripts 🍵
C++

fastqtl

 5  12
Fork of FastQTL for SVs
Python

svtools

 142  55
Tools for processing and analyzing structural variants.

svtyper

 121  54
Bayesian genotyper for structural variants

gtex

 20  8
GTEx analysis scripts

long-read-validation

 9  3
Long-read validation of BEDPE structural variation

1kg_sv_comparison

 4  1

assembly_validation

 4  1

extract_sv_reads

 4  0
Tool for extracting splitter or discordant reads from a BAM or CRAM file.

bamkit

 2  6
Tools for common BAM file manipulations

cromwell-deployment

 2  4
Scripts and configuration to setup a Cromwell deployment

cshl_sv_2016

 2  0

io

 1  0
i/o tools

lumpy-merge

 1  0

tenx-gcp

 1  0
Run 10X Genomics Software in Google Cloud Deployments

old-laims

 0  1
Shell

competitive-alignment

 10  2

protocols

 2  0
Hall lab analysis protocols
wdl

sv-pipeline

 45  20
Pipeline for structural variation detection in cohorts

gatk4-germline-snv-pipeline

 1  1
GATK4 pipeline for joint variant calling (SNP/INDELs)