Alternatives and similar repositories for Patchwork

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

• BenoitMorel / ParGenes
  A massively parallel tool for model selection and tree inference on thousands of genes
  ☆50Updated last year
• JosephCrispell / homoplasyFinder
  A tool to identify and annotate homoplasies on a phylogeny and sequence alignment
  ☆20Updated 4 years ago
• KamilSJaron / k-mer-approaches-for-biodiversity-genomics
  k-mer learning materials
  ☆80Updated 9 months ago
• rhysf / Synima
  Synteny Imager
  ☆65Updated 2 weeks ago
• ranwez / MACSE_V2_PIPELINES
  This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…
  ☆35Updated 2 years ago
• JLSteenwyk / PhyKIT
  a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
  ☆76Updated last month
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆75Updated 4 years ago
• nylander / catfasta2phyml
  Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file
  ☆73Updated last year
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆47Updated last year
• PombertLab / SYNY
  The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.
  ☆46Updated 4 months ago
• davidemms / STAG
  STAG: Species Tree from All Genes
  ☆34Updated 6 years ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆44Updated 6 years ago
• BenoitMorel / GeneRax
  ☆72Updated 5 months ago
• 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
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• MaoYafei / TREEasy
  A tool to infer species tree and phylogenetic network from multilocus data
  ☆32Updated 5 years ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆48Updated this week
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆62Updated 2 years ago
• darwintreeoflife / darwintreeoflife.data
  Interim data for the Darwin Tree of Life Project
  ☆33Updated 5 years ago
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆62Updated 7 years ago
• esayyari / DiscoVista
  ☆42Updated 2 years ago
• jamiemcg / BUSCO_phylogenomics
  BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins
  ☆84Updated last year
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆64Updated 5 months ago
• harta55 / EnTAP
  EnTAP is moving to GitLab for future changes https://gitlab.com/PlantGenomicsLab/EnTAP
  ☆41Updated 9 months ago
• KatharinaHoff / GenomeAnnotation_Workshop
  Materials for genome annotation sessions at the WORKSHOP ON GENOMICS, CESKY KRUMLOV
  ☆16Updated 10 months ago
• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆56Updated 4 years ago
• bcgsc / ntSynt-viz
  Multi-genome synteny block visualization tool
  ☆47Updated last month
• BGAcademy23 / smudgeplot
  Biodiversity Genomics Academy 2023: Understanding k-mers and ploidy using Smudgeplot
  ☆11Updated 2 years ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago