Alternatives and similar repositories for loco-pipe

Users that are interested in loco-pipe are comparing it to the libraries listed below

• heche-psb / wgd
  wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication
  ☆37Updated 7 months ago
• JanaSperschneider / FindTelomeres
  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files
  ☆34Updated 3 years ago
• bcgsc / ntSynt-viz
  Multi-genome synteny block visualization tool
  ☆47Updated 8 months ago
• carolindahms / TreeMix
  Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…
  ☆37Updated last year
• A-J-F-Mackintosh / syngraph
  Toolkit for evolutionary analyses of linkage groups
  ☆32Updated last year
• miriammiyagi / QuIBL
  Quantifying Introgression via Branch Lengths
  ☆54Updated 3 years ago
• esrud / GONE
  GONE: Scripts, programs and an example data set
  ☆47Updated 2 months ago
• obenno / ShinySyn
  A shiny application to visualize MCscan result
  ☆37Updated 3 years ago
• annaprotasio / TE_ManAnnot
  Accompanying repository for our publications on manual curation methods for Transposable Elements.
  ☆21Updated last year
• Farre-lab / syntenyPlotteR
  R package to draw syntenic plots in 3 different styles
  ☆42Updated last month
• popgenmethods / momi2
  Infer demographic history with the Moran model
  ☆48Updated 3 months ago
• ellenbell / FasTE
  A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…
  ☆27Updated 2 years ago
• KatharinaHoff / GenomeAnnotation_Workshop
  Materials for genome annotation sessions at the WORKSHOP ON GENOMICS, CESKY KRUMLOV
  ☆16Updated 9 months ago
• harvardinformatics / degenotate
  ☆52Updated 3 months ago
• gphocs-dev / G-PhoCS
  G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual …
  ☆34Updated 4 years ago
• piosierra / pantera
  Identification of transposable element families from pangenome polymorphisms
  ☆53Updated 4 months ago
• hsigeman / findZX
  ☆23Updated 3 years ago
• FerRacimo / GRoSS
  Graph-aware Retrieval of Selective Sweeps
  ☆22Updated last year
• alachins / sweed
  Likelihood-based Selective Sweep Detection
  ☆40Updated last year
• ThibaultLeroyFr / Intro2PopGenomics
  Leroy & Rougemont - “learning-by-doing” introduction to population genomics - scripts
  ☆21Updated 6 years ago
• Yandell-Lab / maker
  Genome Annotation Pipeline
  ☆36Updated last year
• schneebergerlab / findGSE
  findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a ske…
  ☆38Updated last year
• zy-optimistic / GAEP
  A genome assembly assessment pipeline.
  ☆37Updated last year
• ChongLab / Inspector
  A tool for evaluate long-read de novo assembly results
  ☆48Updated last year
• simonhmartin / tutorials
  Tutorials on evolutionary genomics
  ☆46Updated 3 years ago
• clairemerot / physalia_adaptation_course
  ☆18Updated 2 years ago
• ShiuLab / PseudogenePipeline
  ☆40Updated 2 years ago
• hillerlab / make_lastz_chains
  Portable solution to generate genome alignment chains using lastz
  ☆59Updated 2 weeks ago
• sjteresi / TE_Density
  Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…
  ☆34Updated last year
• schmeing / gapless
  Gapless provides combined scaffolding, gap-closing and assembly correction with long reads
  ☆37Updated 2 years ago