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
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆29Updated 7 months ago
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆46Updated 4 years ago
• ablab / stringdecomposer
  Tool for decomposition centromeric assemblies and long reads into monomers
  ☆36Updated 2 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 4 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• schatzlab / pseudohaploid
  Create a pseudohaploid assembly from a partially resolved diploid assembly
  ☆32Updated 5 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 10 months ago
• pangenome / HPRCyear1v2genbank
  building a human pangenome from the HPRCy1v2 genbank accessioned assemblies
  ☆14Updated 2 years ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆27Updated last year
• Xinglab / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆20Updated 10 months ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 8 months ago
• mrvollger / NucFreq
  ☆36Updated last year
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆31Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated last year
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• Zhuxitong / ppsPCP
  A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline
  ☆26Updated 3 years ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆21Updated 4 years ago
• vgteam / giraffe-sv-paper
  ☆42Updated 11 months ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆23Updated 3 years ago
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆36Updated 3 weeks ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆34Updated 2 years ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆12Updated 2 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆33Updated last month
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆30Updated 3 years ago