Alternatives and similar repositories for pbwt

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

• lh3 / minimap
  This repo is DEPRECATED. Please use minimap2, the successor of minimap.
  ☆105Updated 7 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆137Updated 2 weeks 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
• iqbal-lab-org / gramtools
  Genome inference from a population reference graph
  ☆97Updated 3 months ago
• bcgsc / biobloom
  Create Bloom filters for a given reference and then use it to categorize sequences
  ☆76Updated 7 months ago
• odelaneau / shapeit4
  Segmented HAPlotype Estimation and Imputation Tool
  ☆94Updated last year
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆94Updated 8 months ago
• ChaissonLab / LRA
  Long read aligner
  ☆115Updated 2 years ago
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆77Updated last year
• lh3 / fermi-lite
  Standalone C library for assembling Illumina short reads in small regions
  ☆72Updated 2 years ago
• dnanexus-rnd / GLnexus
  Scalable gVCF merging and joint variant calling for population sequencing projects
  ☆163Updated last year
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• thegenemyers / DALIGNER
  Find all significant local alignments between reads
  ☆141Updated last year
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆105Updated 2 years ago
• dcjones / fastq-tools
  Small utilities for working with fastq sequence files.
  ☆124Updated 2 years ago
• COMBINE-lab / RapMap
  Rapid sensitive and accurate read mapping via quasi-mapping
  ☆89Updated 5 years ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated last month
• Illumina / paragraph
  Graph realignment tools for structural variants
  ☆158Updated 2 years ago
• lh3 / fermikit
  De novo assembly based variant calling pipeline for Illumina short reads
  ☆108Updated 4 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆85Updated 7 years ago
• nh13 / DWGSIM
  Whole Genome Simulator for Next-Generation Sequencing
  ☆98Updated 7 months ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆72Updated 9 years ago
• human-pangenomics / hpgp-data
  Data from the Human PanGenomics Project
  ☆60Updated 4 years ago
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆124Updated 2 weeks ago
• statgen / bamUtil
  ☆91Updated 3 years ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆134Updated 4 years ago
• DecodeGenetics / graphtyper
  Population-scale genotyping using pangenome graphs
  ☆186Updated 6 months ago
• marbl / MHAP
  MinHash Alignment Process (MHAP, pronounced MAP): locality-sensitive hashing to detect long-read overlaps and utilities
  ☆96Updated 3 years ago