Alternatives and similar repositories for pangenie

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

• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆89Updated last month
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆122Updated last week
• EichlerLab / pav
  Phased assembly variant caller
  ☆123Updated 8 months ago
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆121Updated 2 weeks ago
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆102Updated 6 months ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆111Updated this week
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆193Updated 2 months ago
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆121Updated 2 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆118Updated 3 months ago
• lh3 / yak
  Yet another k-mer analyzer
  ☆144Updated last year
• twolinin / longphase
  ☆116Updated 3 months ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆133Updated last year
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆99Updated last month
• starskyzheng / panpop
  Application of pan-genome for population
  ☆108Updated 9 months ago
• mrvollger / StainedGlass
  Make colorful identity heatmaps of genomic sequence
  ☆120Updated last year
• daewoooo / SVbyEye
  ☆134Updated 3 months ago
• tbenavi1 / genomescope2.0
  Reference-free profiling of polyploid genomes
  ☆120Updated 2 months ago
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆116Updated 8 months ago
• eldariont / svim
  Structural Variant Identification Method using Long Reads
  ☆173Updated 4 years ago
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆79Updated last year
• xiaochuanle / MECAT2
  ☆71Updated 5 years ago
• lh3 / dipcall
  Reference-based variant calling pipeline for a pair of phased haplotype assemblies
  ☆102Updated 4 years ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆91Updated 3 months ago
• yukiteruono / pbsim3
  PBSIM3: a simulator for all types of PacBio and ONT long reads
  ☆80Updated 3 months ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆185Updated 3 months ago
• marbl / ModDotPlot
  ☆153Updated this week
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆141Updated last week
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆81Updated 4 years ago
• HuiyangYu / PanDepth
  An ultra-fast and efficient genomic tool for coverage calculation
  ☆157Updated 4 months ago