Alternatives and similar repositories for gfatools:

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

• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 3 years ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆140Updated 2 years ago
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆140Updated 2 months ago
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆178Updated 6 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆137Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆190Updated 3 weeks ago
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆218Updated last year
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆155Updated last year
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆194Updated last year
• mahulchak / quickmerge
  A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.
  ☆202Updated 2 years ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆81Updated 2 years ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆215Updated last week
• wdecoster / cramino
  A *fast* tool for BAM/CRAM quality evaluation, intended for long reads
  ☆131Updated last month
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆182Updated 8 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆132Updated 2 months ago
• Benson-Genomics-Lab / TRF
  Tandem Repeats Finder: a program to analyze DNA sequences
  ☆160Updated 2 years ago
• wdecoster / nanocomp
  Comparison of multiple long read datasets
  ☆121Updated last month
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆252Updated last week
• wdecoster / chopper
  ☆160Updated 4 months ago
• lbcb-sci / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
  ☆207Updated last year
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆142Updated 2 years ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆178Updated last month
• marbl / Winnowmap
  Long read / genome alignment software
  ☆268Updated 2 months ago
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆121Updated this week
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆188Updated 3 months ago
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆131Updated 3 years ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆171Updated this week
• c-zhou / yahs
  Yet another Hi-C scaffolding tool
  ☆136Updated 2 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆200Updated 2 months ago