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astarix

AStarix: Fast and Optimal Sequence-to-Graph Aligner

bam_stats

basevar

Call variants for ultra low-pass WGS data.

bfcounter

bwt

String search using the Burrows-Wheeler transform

cgranges

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

cogent

Coding Genome Reconstruction using Iso-Seq data

complete-striped-smith-waterman-library

cppcoreguidelines

The C++ Core Guidelines are a set of tried-and-true guidelines, rules, and best practices about coding in C++

dragonstar2019

fastx

Ultrafast FASTA/FASTQ manipulating tool for both single-end and paired-end sequences

frp

A fast reverse proxy to help you expose a local server behind a NAT or firewall to the internet.

gatk

Official code repository for GATK versions 4 and up

gkl

Accelerated kernel library for genomics

goatools

Python scripts to find enrichment of GO terms

gssw

efficient alignment of strings to partially ordered string graphs

hapdiff

SV calling for diploid assemblies

hapdup

Pipeline to convert a haploid assembly into diploid

inscan

Region based insertion detection from long reads

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

nanosv

SV caller for nanopore data

onjava8

《On Java 8》中文版，又名《Java编程**》 第5版

pbmm2

A minimap2 frontend for PacBio native data formats

picky

Structural Variants Pipeline for Long Reads

pure-bash-bible

📖 A collection of pure bash alternatives to external processes.

pvactools

pybst

python implement of naive binary search tree and red-black tree

pyseqkit

Toolkit for processing sequences in FASTA/Q formats

r-index

An optimal space run-length Burrows-Wheeler transform full-text index

raptor

A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.