Alternatives and similar repositories for genomeassembly

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

• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆35Updated last week
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆29Updated 3 months ago
• JustinChu / ntsm
  This tools counts the number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to comp…
  ☆30Updated last year
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 7 months ago
• SouthGreenPlatform / panache
  Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…
  ☆45Updated 2 years ago
• gatech-genemark / GeneMark-ETP
  GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology
  ☆26Updated 8 months ago
• bcgsc / goldrush
  Linear-time de novo Long Read Assembler
  ☆41Updated last month
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆38Updated last year
• enormandeau / snplift
  Transfer coordinates across genomes
  ☆23Updated 6 months ago
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆42Updated last year
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆39Updated 2 months ago
• agshumate / LiftoffTools
  ☆29Updated 2 years ago
• svm-zhang / AGOUTI
  Annotated Genome Optimization Using Transcriptome Information
  ☆20Updated 5 years ago
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆32Updated last year
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆32Updated 5 years ago
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆32Updated 4 years ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆50Updated 3 years ago
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆27Updated 5 months ago
• lpryszcz / pyScaf
  Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.
  ☆24Updated 7 years ago
• mrvollger / NucFreq
  ☆38Updated 2 months ago
• DessimozLab / edgehog
  Infering ancestral synteny with hierarchical orthologous groups
  ☆36Updated last month
• at-cg / RAFT
  ☆29Updated last year
• warp9seq / minimod
  A bioinformatics tool for viewing and calculating base modification frequencies from BAM files
  ☆40Updated this week
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆36Updated 3 weeks ago
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆28Updated 2 months ago
• human-pangenomics / hprc-tutorials
  ☆18Updated last year
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆32Updated 4 years ago