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

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

Tool for easily installing and managing multiple versions of the Nim programming language.

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

The HPC toolbox: fused matrix multiplication, convolution, data-parallel strided tensor primitives, OpenMP facilities, SIMD, JIT Assembler, CPU detection, state-of-the-art vectorized BLAS for float…

nim wrapper for htslib for parsing genomics data files

🚀 seqfu - Sequece Fastx Utilities

don't get DUP'ed or DEL'ed by your putative SVs.

A powerful and easy-to-use fuzzing framework in Nim for C/C++/Obj-C targets

Detect novel (and reference) STR expansions from short-read data

seqcover allows users to view coverage for hundreds of genes and dozens of samples

useful command-line tools written to showcase hts-nim

simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.

find large indels (in the blind spot between GATK/freebayes and SV callers)

LoFreq Version 3

Kmer based genotyper for short reads.

Sample Contamination Estimate from VCF

BitVector Implementation in Nim

DNA kmer operations for nim

A collection of CSV/TSV Utilities

Split bed intervals by estimated read counts from bam index

Split bed intervals by maximum read counts

Fragment-Aware Local Assembly for Short-reads

DO NOT USE inject variants (snps/indels) from a vcf into a bam efficiently.

simple reader and writer for gzipped (and regular) files

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