Alternatives and similar repositories for cgranges

Users that are interested in cgranges are comparing it to the libraries listed below

• thegenemyers / FASTK
  A fast K-mer counter for high-fidelity shotgun datasets
  ☆140Updated last week
• rvaser / spoa
  SIMD partial order alignment tool/library
  ☆171Updated 4 months ago
• lh3 / kmer-cnt
  Code examples of fast and simple k-mer counters for tutorial purposes
  ☆171Updated 5 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆138Updated 4 months ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆111Updated last year
• thegenemyers / DALIGNER
  Find all significant local alignments between reads
  ☆141Updated last year
• marbl / MashMap
  A fast approximate aligner for long DNA sequences
  ☆286Updated last year
• pmelsted / bifrost
  Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
  ☆221Updated 3 months ago
• COMBINE-lab / RapMap
  Rapid sensitive and accurate read mapping via quasi-mapping
  ☆90Updated 5 years ago
• GFA-spec / GFA-spec
  Graphical Fragment Assembly (GFA) Format Specification
  ☆218Updated last year
• mozack / abra2
  ABRA2
  ☆95Updated 3 years ago
• pangenome / seqwish
  alignment to variation graph inducer
  ☆156Updated last week
• smarco / WFA-paper
  Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment
  ☆199Updated 3 years ago
• tfwillems / HipSTR
  Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
  ☆100Updated 2 years ago
• lh3 / minimap
  This repo is DEPRECATED. Please use minimap2, the successor of minimap.
  ☆106Updated 8 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆81Updated last year
• shubhamchandak94 / Spring
  FASTQ compression
  ☆142Updated 2 years ago
• dcjones / fastq-tools
  Small utilities for working with fastq sequence files.
  ☆123Updated 3 years ago
• lh3 / ksw2
  Global alignment and alignment extension
  ☆141Updated 2 years ago
• alastair-droop / fqtools
  An efficient FASTQ manipulation suite
  ☆138Updated 6 years ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆79Updated last year
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆134Updated 3 months ago
• richarddurbin / pbwt
  Implementation of Positional Burrows-Wheeler Transform for genetic data
  ☆112Updated 2 months ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆136Updated 4 years ago
• ChaissonLab / LRA
  Long read aligner
  ☆115Updated 2 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆110Updated 3 months ago
• lh3 / gfatools
  Tools for manipulating sequence graphs in the GFA and rGFA formats
  ☆247Updated last month
• statgen / bamUtil
  ☆92Updated 4 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆143Updated 5 months ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆250Updated 4 months ago