Alternatives and similar repositories for dnds

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

• JLSteenwyk / orthosnap
  a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
  ☆27Updated 3 months ago
• rhysf / Diamond2GO
  Diamond2GO is a set of tools that can rapidly assign Gene Ontology (GO) terms and perform functional enrichment for large-scale functiona…
  ☆24Updated 3 weeks ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆36Updated 5 months ago
• HuiyangYu / TGSFilter
  TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming
  ☆26Updated last year
• AuReMe / mpwt
  Pathway Tools multiprocessing wrapper (for PathoLogic).
  ☆14Updated last week
• 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…
  ☆15Updated last year
• DessimozLab / edgehog
  Infering ancestral synteny with hierarchical orthologous groups
  ☆36Updated 2 months ago
• songweizhi / BioSAK
  A Swiss-Army-Knife for Bioinformaticians
  ☆13Updated 2 weeks ago
• slimsuite / buscomp
  BUSCOMP: BUSCO Compiler and Comparison tool
  ☆21Updated last year
• danny-wilson / genomegaMap
  Within-species genome-wide dN/dS estimation from very many genomes
  ☆22Updated 5 years ago
• cfarkas / annotate_my_genomes
  A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes
  ☆30Updated last year
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆31Updated 6 months ago
• MrTomRod / orthofinder-tools
  Tools to process OrthoFinder output: Calculate the most common gene name of an orthogroup by majority vote and create plots analogous to …
  ☆19Updated last year
• YaoZhou89 / WGSc
  ☆15Updated 3 years ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• simonhmartin / asynt
  Genome alignment and synteny plots
  ☆33Updated 2 years ago
• moshi4 / FastDTLmapper
  Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method
  ☆17Updated 3 years ago
• wushyer / RGAAT_v2
  Add multiple thread function for genome comparison
  ☆16Updated 4 years ago
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆30Updated 3 months ago
• phasegenomics / matlock
  Simple tools for working with Hi-C data
  ☆18Updated 7 years ago
• sc-zhang / T2Tools
  T2Tools is a toolset contains several tools for T2T assembly, and it is under development.
  ☆15Updated 3 months ago
• at-cg / RAFT
  ☆30Updated last year
• Markusjsommer / TD2
  TD2
  ☆29Updated 3 weeks 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 …
  ☆31Updated 3 years ago
• PlantDr430 / BuscoOrthoPhylo
  Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs
  ☆20Updated 6 years ago
• legumeinfo / pandagma
  Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.
  ☆19Updated this week
• ERGA-consortium / pipelines
  ☆17Updated 6 months ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆22Updated last year
• NBISweden / TransposonPSI
  TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…
  ☆14Updated 5 years ago
• lly1214 / CAU-T2T-Sheep
  A complete telomere-to-telomere assembly of sheep: T2T-sheep1.0
  ☆21Updated last year