ChaissonLab's repositories
danbing-tk
Toolkit for VNTR genotyping and repeat-pan genome graph construction
SegDupAnnotation2
Count gene duplications.
chaissonlab.github.io
Start page for lab website.
danbing-tk_rxiv
Genome-wide genotyping of VNTRs from short-read datasets with haplotype-resolved database
eMotif_manuscript_analysis_scripts
Analysis scripts associated with the manuscript "The motif composition of variable-number tandem repeats impacts gene expression", including bias correction, eQTL mapping, fine-mapping, and genome folding prediction.
GenomeIndex
paths to genome data -> download
PartitionedAssembly
Simple phase partitioned pipeline
ScreenInversions
Simple code to look for inversions in local assemblies.
vamos-somatic
A wdl file for generating per-read calls for tandem repeats in long-read data.
bioconda-recipes
Conda recipes for the bioconda channel.
Ctyper
Genotyping of paralog specific gene types
GTEx-tools
Small tool-list for gtex
RepeatMasking
A snakefile to run repeatmasker on genomes in a scatter/gather approach.