Alternatives and similar repositories for quip

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

• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆77Updated last year
• 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…
  ☆66Updated 10 years ago
• lbcb-sci / graphmap2
  GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…
  ☆67Updated 2 years ago
• mklarqvist / tachyon
  High-level API for storing and querying sequence variant data
  ☆20Updated 6 years ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆110Updated 8 months ago
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆51Updated last year
• lh3 / samtools
  This is *NOT* the official repository of samtools.
  ☆47Updated 8 years ago
• sequencing / isaac_variant_caller
  This project is deprecated, please see strelka2 at https://github.com/Illumina/strelka
  ☆37Updated 8 years ago
• dnanexus-archive / samtools
  ☆30Updated 8 years ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆32Updated 6 months ago
• bcgsc / biobloom
  Create Bloom filters for a given reference and then use it to categorize sequences
  ☆76Updated 7 months ago
• refresh-bio / DSRC
  DSRC - DNA Sequence Reads Compressor
  ☆59Updated 3 years ago
• ekg / fastahack
  utilities for indexing and sequence extraction from FASTA files
  ☆59Updated 4 years ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆51Updated 4 years ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 2 years ago
• COMBINE-lab / cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
  ☆87Updated last month
• opencb / hpg-aligner
  HPG Aligner is an ultrafast and highly sensitive Next-Generation Sequencing (NGS) mapper which supoprts both DNA and RNA alignment
  ☆34Updated 7 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆105Updated 2 years ago
• lh3 / minimap
  This repo is DEPRECATED. Please use minimap2, the successor of minimap.
  ☆105Updated 7 years ago
• arshajii / ema
  Fast & accurate alignment of barcoded short-reads
  ☆33Updated last year
• aquaskyline / LRSIM
  10x Genomics Reads Simulator
  ☆45Updated last year
• enasequence / cramtools
  CRAM format specification and java API for read data.
  ☆60Updated 6 years ago
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆67Updated 7 months ago
• Cibiv / NextGenMap
  NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms whil…
  ☆87Updated 6 years ago
• ruanjue / wtdbg
  A fuzzy Bruijn graph approach to long noisy reads assembly
  ☆39Updated 8 years ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆67Updated 7 years ago
• i5K-KINBRE-script-share / Irys-scaffolding
  scripts to parse IrysView output
  ☆39Updated 9 years ago
• yechengxi / DBG2OLC
  A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long…
  ☆65Updated 4 years ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆84Updated 7 years ago