Alternatives and similar repositories for pangene

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

• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆213Updated last month
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆119Updated last week
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆99Updated this week
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆110Updated 6 months ago
• EichlerLab / pav
  Phased assembly variant caller
  ☆116Updated 6 months ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆182Updated 3 weeks ago
• wdecoster / nanocomp
  Comparison of multiple long read datasets
  ☆132Updated 3 weeks ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆164Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆215Updated 5 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆225Updated 4 months ago
• twolinin / longphase
  ☆112Updated last month
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆117Updated last month
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆127Updated last month
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆156Updated 3 years ago
• nadegeguiglielmoni / genome_assembly_tools
  List of genome assembly tools
  ☆65Updated this week
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆117Updated 2 years ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 2 years ago
• cgroza / GraffiTE
  GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …
  ☆188Updated 2 weeks ago
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆110Updated 2 weeks ago
• arangrhie / T2T-Polish
  Evaluation and polishing workflows for T2T genome assemblies
  ☆128Updated 7 months ago
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆91Updated last month
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆173Updated 4 years ago
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆150Updated 3 months ago
• marbl / meryl
  A genomic k-mer counter (and sequence utility) with nice features.
  ☆137Updated 3 months ago
• RemiAllio / MitoFinder
  MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
  ☆104Updated last year
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆149Updated 3 months ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆126Updated 9 months ago
• hahnlab / CAFE5
  Version 5 of the CAFE phylogenetics software
  ☆133Updated 3 months ago
• wdecoster / cramino
  A *fast* tool for BAM/CRAM quality evaluation, intended for long reads
  ☆151Updated 2 months ago
• zhangrengang / TEsorter
  TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes
  ☆96Updated 3 months ago