Nils Homer's repositories
somalier
fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"
MultiQC_TestData
Test data for MultiQC. See https://github.com/ewels/MultiQC
bfx-qc-reporter
Bioinformatics QC Reporting Tools
cvbio
Artisanal 🤣 bioinformatics tools and pipelines in Scala
linguist
Language Savant. If your repository's language is being reported incorrectly, send us a pull request!
wdl
Workflow Description Language - Specification and Implementations
ExpansionHunter
A tool for estimating repeat sizes
manta
Structural variant and indel caller for mapped sequencing data
miniwdl-feedstock
A conda-smithy repository for miniwdl.
dx-toolkit
DNAnexus platform client libraries
mill
Your shiny new Java/Scala build tool!
basespace-invaders
A collection of tools to work with Illumina's basespace
strelka
Strelka2 germline and somatic small variant caller
digenomitas
Digenome software
ped-sim
Pedigree simulator
hap.py
Haplotype VCF comparison tools
fg-idprimer
Command-line Tools to Identify Primers in high throughput sequencing data
PyVCF
A Variant Call Format reader for Python.
bioconda-utils
Utilities for building and managing bioconda recipes
klib
A standalone and lightweight C library
edlib
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
cpython
The Python programming language
hisat2
Graph-based alignment (Hierarchical Graph FM index)
bwapy
Python bindings to bwa mem
snakeparse
Making Snakemake workflows into full-fledged command line tools since 1999.
dagr
A scala based DSL and framework for writing and executing bioinformatics pipelines as Directed Acyclic GRaphs