Alternatives and similar repositories for pangenie:

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

• EichlerLab / pav
  Phased assembly variant caller
  ☆112Updated 5 months ago
• marschall-lab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆102Updated last month
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆81Updated 3 months ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆115Updated 3 weeks ago
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆111Updated 2 weeks ago
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆100Updated 3 months ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆128Updated last week
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆124Updated 9 months ago
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆109Updated 5 months ago
• twolinin / longphase
  ☆110Updated this week
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆81Updated 2 years ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆145Updated 2 months ago
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆113Updated 2 years ago
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆112Updated last month
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆117Updated last week
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆97Updated last year
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆110Updated 10 months ago
• marbl / ModDotPlot
  ☆145Updated 3 weeks ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆114Updated last week
• starskyzheng / panpop
  Application of pan-genome for population
  ☆104Updated 6 months ago
• marbl / HG002
  A complete diploid human genome
  ☆117Updated 3 months ago
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆76Updated 11 months ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆89Updated 2 weeks ago
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆92Updated last month
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆186Updated last month
• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆209Updated this week
• YaoZhou89 / TGG
  tomato graph pangenome
  ☆81Updated 2 years ago
• asl / BandageNG
  a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
  ☆128Updated last week
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆72Updated 3 weeks ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆103Updated 2 weeks ago