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
  ☆44Updated last year
• piosierra / pantera
  Identification of transposable element families from pangenome polymorphisms
  ☆55Updated 8 months ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆47Updated 4 years ago
• JanaSperschneider / FindTelomeres
  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files
  ☆36Updated 3 years ago
• vollgerlab / SafFire
  ☆31Updated 9 months ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆40Updated 2 years ago
• schmeing / gapless
  Gapless provides combined scaffolding, gap-closing and assembly correction with long reads
  ☆38Updated 2 years ago
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆50Updated 2 months ago
• rlorigro / GFAse
  Tool for globally phasing diploid assembly graphs with orthogonal data
  ☆43Updated last year
• vollgerlab / NucFreq
  ☆38Updated 4 months ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆37Updated 8 months ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆31Updated 8 months ago
• ablab / VerityMap
  ☆39Updated 2 years ago
• iganna / pannagram
  ☆33Updated last week
• maickrau / ribotin
  ☆38Updated last month
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆22Updated last year
• pangenome / impg
  implicit pangenome graph
  ☆88Updated this week
• marbl / rukki
  Extracting paths from assembly graphs
  ☆24Updated last year
• pangenome / pgge
  the pangenome graph evaluator
  ☆29Updated 4 years ago
• jtlovell / DEEPSPACE
  Whole genome visualization and comparative genomics in R
  ☆21Updated 11 months ago
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆30Updated 3 weeks ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 9 months ago
• AndreaGuarracino / paf2chain
  convert PAF format to CHAIN format
  ☆34Updated 8 months ago
• A-J-F-Mackintosh / syngraph
  Toolkit for evolutionary analyses of linkage groups
  ☆33Updated last year
• schatzlab / pseudohaploid
  Create a pseudohaploid assembly from a partially resolved diploid assembly
  ☆32Updated 6 years ago
• MoritzBlumer / winpca
  WinPCA. A package for windowed principal component analysis.
  ☆45Updated last week
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆62Updated 2 weeks ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆30Updated last year
• bcgsc / ntSynt-viz
  Multi-genome synteny block visualization tool
  ☆52Updated last week
• shingocat / lrscaf
  TGS scaffolding
  ☆47Updated 4 years ago