Alternatives and similar repositories for GenomeAlignmentTools

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

• mahulchak / svmu
  A program to call variants from genome alignment
  ☆81Updated 7 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
• mapleforest / HaploMerger2
  ☆45Updated 8 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆59Updated 2 years ago
• obenno / ShinySyn
  A shiny application to visualize MCscan result
  ☆37Updated 3 years ago
• CAFS-bioinformatics / LR_Gapcloser
  use long sequenced reads to close gaps in assemblies
  ☆39Updated 7 years ago
• JanaSperschneider / FindTelomeres
  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files
  ☆35Updated 3 years ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆54Updated 4 months ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆49Updated 3 weeks ago
• aubombarely / Organelle_PBA
  A software to assemble chloroplast and mitochodrial genomes using PacBio data
  ☆40Updated 5 years ago
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆54Updated 7 years ago
• shilpagarg / DipAsm
  ☆78Updated 5 years ago
• shingocat / lrscaf
  TGS scaffolding
  ☆47Updated 4 years ago
• HullUni-bioinformatics / TE-search-tools
  Python wrappers for programs that search for transposable elements
  ☆19Updated 9 years ago
• harvardinformatics / degenotate
  ☆53Updated 5 months ago
• oushujun / LTR_FINDER_parallel
  A parallel wrapper for LTR_FINDER
  ☆55Updated 8 months ago
• sjteresi / TE_Density
  Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…
  ☆35Updated last year
• Yandell-Lab / maker
  Genome Annotation Pipeline
  ☆42Updated last year
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆84Updated 4 years ago
• phyloacc / PhyloAcc
  PhyloAcc a software to detect the changes of conservation of a genomic region
  ☆33Updated last month
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆57Updated 2 years ago
• molevol-ub / bitacora
  BITACORA: A Bioinformatics tool for gene family annotation
  ☆49Updated 6 months ago
• annaprotasio / TE_ManAnnot
  Accompanying repository for our publications on manual curation methods for Transposable Elements.
  ☆21Updated last year
• TF-Chan-Lab / panGraphViewer
  Show pangenome graphs in an easy way
  ☆56Updated 4 months ago
• xzhub / LTR_Finder
  LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.
  ☆51Updated last year
• ngarud / SelectionHapStats
  SelectionHapStats is a repository of Python scripts written to identify natural selection events in the genome and R scripts written to v…
  ☆27Updated 7 years ago
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆63Updated 11 months ago
• vlothec / TRASH
  RepeatIdentifier
  ☆71Updated 8 months ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆44Updated 6 years ago
• c-zhou / oatk
  A organelle de novo genome assembly toolkit
  ☆70Updated 9 months ago