chaissonlab Goto Github PK
Type: Organization
chaissonlab's Projects
assemblyanalysis
bioconda-recipes
Conda recipes for the bioconda channel.
card-vntr
Tandem repeat analysis for the CARD consortium
chaissonlab.github.io
Start page for lab website.
danbing-tk
Toolkit for VNTR genotyping and repeat-pan genome graph construction
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
gtex-tools
Small tool-list for gtex
hgsvg
Analysis code for 1kg
hmcnc
Hidden Markov Model based Copy number caller
lra
Long read aligner
mcst
Simple sam manipulation code. Includes inversion finding.
partitionedassembly
Simple phase partitioned pipeline
rare-var-scratch
repeatmasking
A snakefile to run repeatmasker on genomes in a scatter/gather approach.
screeninversions
Simple code to look for inversions in local assemblies.
sedef
Identification of segmental duplications in the genome
segdupannotation
segdupannotation2
Count gene duplications.
tt-mars
Structural Variants Assessment Based on Haplotype-resolved Assemblies
vamos
VNTR annotation using motif selection
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