Alternatives and similar repositories for mscaffolder

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

• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆30Updated 3 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 4 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• institut-de-genomique / HAPO-G
  Hapo-G is a tool that aims to improve the quality of genome assemblies by polishing the consensus with accurate reads.
  ☆25Updated last year
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆32Updated 5 years ago
• svm-zhang / AGOUTI
  Annotated Genome Optimization Using Transcriptome Information
  ☆20Updated 5 years ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆33Updated 2 months ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• fritzsedlazeck / sge_mummer
  Scripts to split reference and run mummer in parallel on an SGE cluster
  ☆11Updated 8 years ago
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆39Updated 10 months ago
• nextgenusfs / redmask
  Genome assembly soft-masking using Red (REpeat Detector)
  ☆18Updated 6 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆22Updated 4 years ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• at-cg / RAFT
  ☆26Updated last year
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 11 months ago
• bioinfologics / w2rap
  WGS (Wheat) Robust Assembly Pipeline
  ☆22Updated 3 years ago
• caballero / RepeatLandscape
  profile the repeat landscape in a genome
  ☆16Updated 10 years ago
• simonhmartin / asynt
  Genome alignment and synteny plots
  ☆31Updated 2 years ago
• lpryszcz / pyScaf
  Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.
  ☆24Updated 6 years ago
• kavonrtep / dante
  Domain based annotation of transposable elements
  ☆20Updated 3 months ago
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆28Updated 2 months ago
• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated 5 months ago
• mjsull / DiscoPlot
  Visualising discordant reads
  ☆15Updated 9 years ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆43Updated 10 months ago
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆32Updated 8 months ago
• HuiyangYu / TGSFilter
  TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming
  ☆23Updated last year
• mkirsche / Grafter
  Scaffolding with Ultralong Reads
  ☆15Updated 4 years ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated 9 months ago
• slimsuite / chromsyn
  Chromosome-level synteny plotting using orthologous regions
  ☆29Updated 11 months ago