Stars
find large indels (in the blind spot between GATK/freebayes and SV callers)
A pure Nim k-d tree implementation for efficient spatial querying of point data
Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang
A wrapper to Heng Li's kseq/readfq, an efficient FastQ/Fasta parser
igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
Generate an enhanced VCF files from ClinVar XML Full releases
Variant Alert!, a framework to monitor every significant alteration in variant classification and gene-disease association between two versions of ClinVar database.
stew is collection of utilities, std library extensions and budding libraries that are frequently used at Status, but are too small to deserve their own git repository.
Find and visualize rearrangements in DNA sequences
Fast and accurate gene fusion detection from RNA-Seq data
c2nim is a tool to translate Ansi C code to Nim. The output is human-readable Nim code that is meant to be tweaked by hand before and after the translation process.
A fast, ergonomic and portable tensor library in Nim with a deep learning focus for CPU, GPU and embedded devices via OpenMP, Cuda and OpenCL backends
🖥 📊 🕹 🛠 A curated list of command line apps
Annotates variants in MAF with OncoKB annotation.
Fast, efficient RNA-Seq metrics for quality control and process optimization
IndexTools is a toolkit for extremely fast NGS analysis based on index files.
Figma based UI library for nim, with HTML and OpenGL backends.
simple reader and writer for gzipped (and regular) files