Alternatives and similar repositories for GCI

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

• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆48Updated 10 months ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆92Updated 5 months ago
• c-zhou / oatk
  A organelle de novo genome assembly toolkit
  ☆69Updated 7 months ago
• PacificBiosciences / jasmine
  Call select base modifications in PacBio HiFi reads
  ☆13Updated 8 months ago
• TF-Chan-Lab / panGraphViewer
  Show pangenome graphs in an easy way
  ☆56Updated 2 months ago
• lh3 / srf
  SRF: Satellite Repeat Finder
  ☆97Updated last year
• Plant-Food-Research-Open / assemblyqc
  A Nextflow pipeline for evaluating assembly quality
  ☆37Updated last week
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆111Updated last month
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆58Updated 2 years ago
• epi2me-labs / wf-pore-c
  ☆45Updated 7 months ago
• vlothec / TRASH
  RepeatIdentifier
  ☆69Updated 6 months ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆51Updated 2 months ago
• nanoporetech / duplex-tools
  Splitting of sequence reads by internal adapter sequence search
  ☆51Updated 2 years ago
• mobinasri / flagger
  Evaluating genome assemblies
  ☆105Updated 3 weeks ago
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆103Updated 8 months ago
• lh3 / dipcall
  Reference-based variant calling pipeline for a pair of phased haplotype assemblies
  ☆103Updated 4 years ago
• DessimozLab / OMArk
  ☆79Updated 2 months ago
• PacificBiosciences / pbtk
  PacBio BAM toolkit
  ☆46Updated 7 months ago
• shilpagarg / DipAsm
  ☆78Updated 5 years ago
• Kuanhao-Chao / LiftOn
  🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
  ☆112Updated 2 months ago
• phasegenomics / juicebox_scripts
  A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
  ☆69Updated 4 years ago
• starskyzheng / panpop
  Application of pan-genome for population
  ☆110Updated 11 months ago
• ChongLab / Inspector
  A tool for evaluate long-read de novo assembly results
  ☆48Updated last year
• kjenike / panagram
  ☆66Updated last month
• yangao07 / longcallD
  A local-haplotagging-based small and structural variant caller
  ☆80Updated last month
• PacificBiosciences / HiFiCNV
  Copy number variant caller and depth visualization utility for PacBio HiFi reads
  ☆43Updated 11 months ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆68Updated 3 months ago
• sheinasim-USDA / HiFiAdapterFilt
  Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).
  ☆93Updated last year
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆80Updated last year
• LiLabAtVT / DeepTE
  Neural network classification of TE
  ☆96Updated 4 months ago