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 9 months ago
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 5 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆105Updated 2 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆85Updated 6 years ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 4 years ago
• lh3 / minimap
  This repo is DEPRECATED. Please use minimap2, the successor of minimap.
  ☆105Updated 7 years ago
• PacificBiosciences / DevNet
  The DevNet project on github stores the PacBio DevNet website.
  ☆116Updated 6 years ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆66Updated 6 years ago
• ksahlin / strobealign
  Aligns short reads using dynamic seed size with strobemers
  ☆167Updated 2 weeks ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆125Updated 8 months ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated last week
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• COMBINE-lab / RapMap
  Rapid sensitive and accurate read mapping via quasi-mapping
  ☆89Updated 4 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆137Updated 8 months ago
• dcjones / fastq-tools
  Small utilities for working with fastq sequence files.
  ☆122Updated 2 years ago
• friend1ws / nanomonsv
  SV detection tool for nanopore sequence reads
  ☆91Updated 3 weeks ago
• CCDG / Pipeline-Standardization
  ☆82Updated 6 years ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆77Updated last year
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• dentearl / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆106Updated 2 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆79Updated 3 months ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆70Updated 8 years ago
• nh13 / DWGSIM
  Whole Genome Simulator for Next-Generation Sequencing
  ☆96Updated 4 months ago
• alastair-droop / fqtools
  An efficient FASTQ manipulation suite
  ☆137Updated 5 years ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆144Updated 2 months ago
• parklab / bamsnap
  ☆120Updated 5 months 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 3 weeks ago
• svviz / svviz
  Read visualizer for structural variants
  ☆83Updated 6 years ago
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆90Updated last month