Alternatives and similar repositories for GCI:

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

• daewoooo / SVbyEye
  ☆77Updated last month
• TF-Chan-Lab / panGraphViewer
  Show pangenome graphs in an easy way
  ☆55Updated 2 years ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆47Updated 4 months ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆47Updated last year
• Plant-Food-Research-Open / assemblyqc
  A Nextflow pipeline for evaluating assembly quality
  ☆33Updated 2 weeks ago
• JiaoLaboratory / CRAQ
  Identification of errors in draft genome assemblies with single-base pair resolution for quality assessment and improvement
  ☆58Updated 2 months ago
• c-zhou / oatk
  A organelle de novo genome assembly toolkit
  ☆55Updated last month
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆87Updated last month
• PacificBiosciences / pbtk
  PacBio BAM toolkit
  ☆41Updated last month
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆49Updated 5 months ago
• epi2me-labs / wf-pore-c
  ☆37Updated last month
• mapleforest / HaploMerger2
  ☆43Updated 8 years ago
• ChongLab / Inspector
  A tool for evaluate long-read de novo assembly results
  ☆44Updated 7 months ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated last year
• Gabaldonlab / perSVade
  perSVade: personalized Structural Variation detection
  ☆38Updated last month
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆64Updated last month
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆100Updated 2 months ago
• LiLabAtVT / DeepTE
  Neural network classification of TE
  ☆87Updated 2 years ago
• arangrhie / merfin
  Evaluate variant calls and its combination with k-mer multiplicity
  ☆66Updated 2 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆54Updated 2 years ago
• PacificBiosciences / HiFiCNV
  Copy number variant caller and depth visualization utility for PacBio HiFi reads
  ☆40Updated 5 months ago
• PacificBiosciences / jasmine
  Call select base modifications in PacBio HiFi reads
  ☆4Updated 2 months ago
• marschall-lab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆100Updated 2 weeks ago
• celphin / RepeatOBserverV1
  An R package to visualize chromosome scale repeat patterns and predict centromere locations.
  ☆28Updated 6 months ago
• GonzalezLab / MCHelper
  MCHelper: An automatic tool to curate transposable element libraries
  ☆34Updated last week
• phyloacc / PhyloAcc
  PhyloAcc a software to detect the changes of conservation of a genomic region
  ☆30Updated last week
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆105Updated 3 weeks ago
• nanoporetech / duplex-tools
  Splitting of sequence reads by internal adapter sequence search
  ☆51Updated last year
• phasegenomics / juicebox_scripts
  A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
  ☆65Updated 3 years ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆34Updated 4 months ago