Alternatives and similar repositories for minialign

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

• thegenemyers / DALIGNER
  Find all significant local alignments between reads
  ☆141Updated last year
• lh3 / minimap
  This repo is DEPRECATED. Please use minimap2, the successor of minimap.
  ☆105Updated 7 years ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆85Updated 7 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆137Updated 3 weeks ago
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 5 years ago
• PacificBiosciences / DevNet
  The DevNet project on github stores the PacBio DevNet website.
  ☆116Updated 7 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 5 years ago
• dcjones / fastq-tools
  Small utilities for working with fastq sequence files.
  ☆124Updated 2 years ago
• parklab / bamsnap
  ☆123Updated 8 months ago
• nh13 / DWGSIM
  Whole Genome Simulator for Next-Generation Sequencing
  ☆98Updated 7 months ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆105Updated 2 years ago
• lh3 / readfq
  Fast multi-line FASTA/Q reader in several programming languages
  ☆176Updated 4 years ago
• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆74Updated 5 years ago
• mitenjain / nanopore
  UCSC Nanopore group's software pipeline for reference-based sequence analysis
  ☆54Updated 9 years ago
• alimanfoo / pysamstats
  A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …
  ☆194Updated last week
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆200Updated 4 years ago
• jstjohn / SeqPrep
  Tool for stripping adaptors and/or merging paired reads with overlap into single reads.
  ☆143Updated 8 years ago
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆98Updated 3 years ago
• marbl / HG002
  A complete diploid human genome
  ☆121Updated 6 months ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated last month
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• mateidavid / nanocall
  An Oxford Nanopore Basecaller
  ☆71Updated 3 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 6 years ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆132Updated 11 months ago
• nanoporetech / ont-assembly-polish
  ONT assembly and Illumina polishing pipeline
  ☆89Updated 4 years ago
• statgen / bamUtil
  ☆91Updated 3 years ago
• lh3 / bgt
  Flexible genotype query among 30,000+ samples whole-genome
  ☆95Updated 5 years ago