Alternatives and similar repositories for sedef:

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

• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 3 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 9 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆46Updated 4 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆29Updated 6 months ago
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• pangenome / HPRCyear1v2genbank
  building a human pangenome from the HPRCy1v2 genbank accessioned assemblies
  ☆14Updated 2 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 4 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• vgteam / giraffe-sv-paper
  ☆42Updated 11 months ago
• mrvollger / NucFreq
  ☆35Updated last year
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆26Updated last year
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆48Updated 5 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 8 months ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• human-pangenomics / hprc-tutorials
  ☆16Updated 11 months ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆21Updated 4 years ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆28Updated 4 months ago
• SandraLouise / SVJedi-graph
  SV genotyper for long reads with a variation graph
  ☆12Updated 3 weeks ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated last year
• ablab / stringdecomposer
  Tool for decomposition centromeric assemblies and long reads into monomers
  ☆36Updated 2 years ago
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆35Updated this week
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆34Updated 2 years ago
• Xinglab / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆20Updated 9 months ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆33Updated 2 weeks ago
• hitbc / gcSV
  ☆17Updated last month
• nlapalu / SDDetector
  Segmental duplication detection tool
  ☆15Updated 2 years ago