brentp

peddy

genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF

slurmpy

submit jobs to slurm with quick-and-dirty python

vcfgo

a golang library to read, write and manipulate files in the variant call format.

xopen

open files for buffered reading and writing in #golang

bsub

python wrapper to submit jobs to bsub (and later qsub)

combined-pvalues

combining p-values using modified stouffer-liptak for spatially correlated results (probes)

nim-lapper

fast easy interval overlapping for nim-lang

hileup

horizontal pileup

vcf-bench

evaluating vcf parsing libraries

tnsv

add true-negative SVs from a population callset to a truth-set.

hts-zig

ziglang + htslib

nim-kmer

DNA kmer operations for nim

sveval

run multiple sv evalution tools

go-blosc

go wrapper for blosc (blocked number compression with fast random access)

d4-nim

nim-lang wrapper for https://github.com/38/d4-format

lumpy-sv

lumpy: a general probabilistic framework for structural variant discovery

dysgu

dysgu-SV is a collection of tools for calling structural variants using short or long reads

svpack

Structural variant (SV) analysis tools

truvari

SVBenchmarkingTool

alignment-nf

Whole Exome/Whole Genome Sequencing alignment pipeline

d4-format

The D4 Quantitative Data Format

libvbyte

A fast implementation for varbyte 32bit/64bit integer compression

manta

Structural variant and indel caller for mapped sequencing data

nibsv

SV genotyping with kmers (created during Baylor hackathon)

paragraph

Graph realignment tools for structural variants

power

rusty_v8

Rust bindings for the V8 JavaScript engine

sv-channels

Deep learning-based structural variant caller

v8rustruct

broken example of rust <=> js so I can get help

vbyte-zig

vbyte compression for zig using https://github.com/cruppstahl/libvbyte