Alternatives and similar repositories for gretl:

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

• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆38Updated 4 months ago
• mrvollger / NucFreq
  ☆35Updated 11 months ago
• dfguan / asset
  assembly evaluation tool
  ☆34Updated 2 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆46Updated 3 years ago
• piosierra / pantera
  Identification of transposable element families from pangenome polymorphisms
  ☆44Updated 6 months ago
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆35Updated last month
• rlorigro / GFAse
  Tool for globally phasing diploid assembly graphs with orthogonal data
  ☆39Updated 2 months ago
• ablab / VerityMap
  ☆34Updated last year
• marschall-lab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated this week
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆34Updated 2 months ago
• shelkmike / Mabs
  Mabs, a genome assembly tool which optimizes parameters of Hifiasm and Flye
  ☆29Updated 2 months ago
• mrvollger / SafFire
  ☆28Updated 6 months ago
• JanaSperschneider / FindTelomeres
  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files
  ☆32Updated 2 years ago
• schmeing / gapless
  Gapless provides combined scaffolding, gap-closing and assembly correction with long reads
  ☆35Updated last year
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆22Updated last week
• baozg / phased-assembly-check
  ☆29Updated last month
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆33Updated 2 months ago
• schneebergerlab / fixchr
  ☆15Updated 2 months ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆34Updated last year
• A-J-F-Mackintosh / syngraph
  Toolkit for evolutionary analyses of linkage groups
  ☆26Updated 7 months ago
• vikshiv / mumemto
  Mumemto: multi-MUM and MEM finding across pangenomes
  ☆67Updated last week
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆18Updated 6 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 2 years ago
• shingocat / lrscaf
  TGS scaffolding
  ☆46Updated 3 years ago
• schatzlab / pseudohaploid
  Create a pseudohaploid assembly from a partially resolved diploid assembly
  ☆32Updated 5 years ago
• marbl / rukki
  Extracting paths from assembly graphs
  ☆22Updated 9 months ago
• at-cg / RAFT
  ☆22Updated 5 months ago
• davidemms / STAG
  STAG: Species Tree from All Genes
  ☆33Updated 6 years ago
• Maggi-Chen / Inspector
  A tool for evaluating long-read de novo assembly results
  ☆31Updated 5 months ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆23Updated 3 weeks ago