Alternatives and similar repositories for dnds:

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

• danny-wilson / genomegaMap
  Within-species genome-wide dN/dS estimation from very many genomes
  ☆19Updated 4 years ago
• JLSteenwyk / orthosnap
  a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
  ☆25Updated last month
• lly1214 / CAU-T2T-Sheep
  A complete telomere-to-telomere assembly of sheep: T2T-sheep1.0
  ☆13Updated 5 months ago
• wushyer / RGAAT_v2
  Add multiple thread function for genome comparison
  ☆15Updated 3 years ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆29Updated 3 months ago
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆22Updated 3 months ago
• slimsuite / buscomp
  BUSCOMP: BUSCO Compiler and Comparison tool
  ☆21Updated 6 months ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆19Updated 5 months ago
• legumeinfo / pandagma
  Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.
  ☆17Updated last month
• bcgsc / ntSynt-viz
  Multi-genome synteny block visualization tool
  ☆32Updated 2 months ago
• ERGA-consortium / pipelines
  ☆16Updated 2 weeks ago
• csh3 / RegCloser
  RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…
  ☆13Updated 11 months ago
• nsmro / synphoni
  SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance…
  ☆11Updated last year
• HuiyangYu / TGSFilter
  TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming
  ☆21Updated 10 months ago
• at-cg / RAFT
  ☆22Updated 7 months ago
• moshi4 / FastDTLmapper
  Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method
  ☆15Updated 2 years ago
• simonhmartin / asynt
  Genome alignment and synteny plots
  ☆29Updated last year
• Rowena-h / BUSCOfilter
  A tool to filter BUSCO output into single-copy gene files for phylogenomics
  ☆13Updated 8 months ago
• AuReMe / mpwt
  Pathway Tools multiprocessing wrapper (for PathoLogic).
  ☆14Updated 3 months ago
• isugifNF / polishCLR
  A nextflow pipeline for polishing CLR assemblies
  ☆17Updated 2 years ago
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆24Updated last week
• dvdylus / read2tree
  ☆20Updated 2 years ago
• lauguma / GWideCodeML
  A Python package for testing evolutionary hypotheses in genome-wide approaches.
  ☆31Updated 4 years ago
• jmsong2 / GenomeSyn
  We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …
  ☆25Updated 3 years ago
• kavonrtep / dante
  Domain based annotation of transposable elements
  ☆19Updated 2 months ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• linudz / caastools
  CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.
  ☆19Updated last year
• YaoZhou89 / WGSc
  ☆16Updated 3 years ago
• SamiLhll / macrosyntR
  R package for comparison of synteny conservation at the genome-wide scale.
  ☆14Updated 9 months ago
• xiekunwhy / kmerDedup
  Reduce genome assembly redundancy using shared mapped k-mer method.
  ☆13Updated 11 months ago