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
  ☆116Updated 6 months ago
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆82Updated 4 months ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆107Updated last week
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆117Updated last month
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆117Updated last month
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆114Updated 3 weeks ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆126Updated 9 months ago
• twolinin / longphase
  ☆112Updated last month
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆113Updated 2 months ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆104Updated 2 weeks ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆149Updated 3 months ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆134Updated last month
• starskyzheng / panpop
  Application of pan-genome for population
  ☆105Updated 7 months ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆97Updated last year
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆119Updated last week
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆188Updated this week
• YaoZhou89 / TGG
  tomato graph pangenome
  ☆82Updated 2 years ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 2 years ago
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆100Updated 4 months ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆90Updated last month
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆77Updated last year
• Kuanhao-Chao / LiftOn
  🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
  ☆95Updated 3 months ago
• marbl / HG002
  A complete diploid human genome
  ☆120Updated 4 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆215Updated 5 months ago
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆117Updated 2 years ago
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆110Updated 2 weeks ago
• mobinasri / flagger
  Evaluating genome assemblies
  ☆95Updated last week
• eldariont / svim
  Structural Variant Identification Method using Long Reads
  ☆172Updated 3 years ago
• mrvollger / StainedGlass
  Make colorful identity heatmaps of genomic sequence
  ☆115Updated last year
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆99Updated this week