Alternatives and similar repositories for awesome-pangenomes

Users that are interested in awesome-pangenomes are comparing it to the libraries listed below

• Kuanhao-Chao / LiftOn
  🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
  ☆95Updated 3 months 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
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆127Updated last month
• tbenavi1 / genomescope2.0
  Reference-free profiling of polyploid genomes
  ☆116Updated 10 months ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆117Updated last month
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆82Updated 4 months ago
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆80Updated 4 years ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆107Updated last week
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆91Updated last month
• steuernb / NLR-Annotator
  NLR-Annotator upload
  ☆66Updated last year
• alekseyzimin / EviAnn_release
  This is the standalone version of the EviAnn pipeline
  ☆89Updated last week
• EichlerLab / pav
  Phased assembly variant caller
  ☆116Updated 6 months ago
• daewoooo / SVbyEye
  ☆92Updated last month
• mrvollger / StainedGlass
  Make colorful identity heatmaps of genomic sequence
  ☆115Updated last year
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆97Updated last year
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆56Updated 2 years ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆74Updated 4 years ago
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆77Updated last year
• JustinChu / JupiterPlot
  A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.
  ☆80Updated 6 months ago
• RemiAllio / MitoFinder
  MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
  ☆104Updated last year
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆47Updated 6 months ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆99Updated this week
• mapleforest / HaploMerger2
  ☆44Updated 8 years ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆126Updated 9 months ago
• rjchallis / assembly-stats
  Assembly statistic visualisation
  ☆90Updated last year
• xiaochuanle / MECAT2
  ☆71Updated 5 years ago
• yangao07 / longcallD
  A local-haplotagging-based small and structural variant caller
  ☆78Updated 3 weeks ago
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆110Updated 6 months ago
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆75Updated last month