Alternatives and similar repositories for quip

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

• jltsiren / gcsa2
  BWT-based index for graphs
  ☆73Updated 9 months ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 3 years ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆110Updated last year
• ekg / fastahack
  utilities for indexing and sequence extraction from FASTA files
  ☆59Updated 4 years ago
• jltsiren / gbwt
  Substring index for paths in a graph
  ☆60Updated last week
• richarddurbin / pbwt
  Implementation of Positional Burrows-Wheeler Transform for genetic data
  ☆112Updated last month
• jstjohn / SimSeq
  An illumina paired-end and mate-pair short read simulator. This project attempts to model as many of the quirks that exist in Illumina da…
  ☆68Updated 11 years ago
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆53Updated last year
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆71Updated last month
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆51Updated 5 years ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆66Updated 7 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆77Updated 2 years ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 3 years ago
• mozack / abra
  Assembly Based ReAligner
  ☆74Updated 7 years ago
• GATB / gatb-core
  Core library of the Genome Analysis Toolbox with de-Bruijn graph
  ☆65Updated 11 months ago
• mateidavid / nanocall
  An Oxford Nanopore Basecaller
  ☆70Updated 4 years ago
• thegenemyers / DALIGNER
  Find all significant local alignments between reads
  ☆141Updated last year
• statgen / libStatGen
  Useful set of classes for creating statistical genetic programs.
  ☆52Updated 2 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated 2 months ago
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆86Updated 10 months ago
• mklarqvist / tachyon
  High-level API for storing and querying sequence variant data
  ☆20Updated 6 years ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆85Updated 7 years ago
• COMBINE-lab / cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
  ☆92Updated 8 months ago
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆42Updated last month
• jgurtowski / ectools
  tools for error correction and working with long read data
  ☆44Updated 11 years ago
• lh3 / bgt
  Flexible genotype query among 30,000+ samples whole-genome
  ☆94Updated 6 years ago
• pmelsted / KmerStream
  Streaming algorithm for computing kmer statistics for massive genomics datasets
  ☆54Updated 5 years ago
• lh3 / ropebwt2
  Incremental construction of FM-index for DNA sequences
  ☆72Updated last year
• GATB / bcalm
  compacted de Bruijn graph construction in low memory
  ☆100Updated 2 months ago