Alternatives and similar repositories for minimappy

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

• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆30Updated 3 years ago
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆28Updated last year
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 3 months ago
• karel-brinda / samsift
  SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.
  ☆23Updated 2 months ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated last year
• COMBINE-lab / RapClust
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆31Updated last year
• gt1 / daccord
  d'accord is a non hybrid long read consensus program based on local de Bruijn graph assembly
  ☆19Updated 7 years ago
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 7 years ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year
• walaj / svlib
  Toolkit for extracting SVs from long sequences and benchmarking variant callers
  ☆13Updated 8 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆30Updated 5 months ago
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆18Updated 5 years ago
• mikolmogorov / pbclip
  A simple tool to fix PacBio fasta/q that was not properly split into subreads
  ☆16Updated 4 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 3 months ago
• benoukraflab / NanoVar---archived
  Archived version 1.0.2
  ☆16Updated 5 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 6 years ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated this week
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• Magdoll / CoSA
  Coronavirus (SARS-Cov-2) sequencing analysis
  ☆10Updated 4 years ago
• swarris / Pacasus
  Correction of palindromes in long reads from PacBio and Nanopore
  ☆14Updated 3 years ago
• cdarby / samovar
  Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters
  ☆23Updated 6 years ago
• jts / mbtools
  ☆14Updated 2 years ago
• VGP / vgp-tools
  ☆28Updated 7 months ago
• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 6 years ago
• kevlar-dev / kevlar
  Reference-free variant discovery in large eukaryotic genomes
  ☆41Updated 4 years ago
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago