Alternatives and similar repositories for i-ADHoRe:

Users that are interested in i-ADHoRe are comparing it to the libraries listed below

• VIB-PSB / ksrates
  ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…
  ☆16Updated 6 months ago
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆30Updated last month
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆31Updated 2 years ago
• arzwa / Whale.jl
  Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation
  ☆13Updated 2 years ago
• fawaz-dabbaghieh / bubble_gun
  ☆40Updated 2 months ago
• DyogenIBENS / SCORPIOS
  SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.
  ☆20Updated 3 months ago
• PlantDr430 / BuscoOrthoPhylo
  Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs
  ☆20Updated 5 years ago
• davidemms / STAG
  STAG: Species Tree from All Genes
  ☆32Updated 6 years ago
• JLSteenwyk / orthosnap
  a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
  ☆25Updated last month
• gatech-genemark / GeneMark-ETP
  GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology
  ☆20Updated 8 months ago
• linudz / caastools
  CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.
  ☆16Updated last year
• at-cg / RAFT
  ☆21Updated 4 months ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆34Updated last month
• rcedgar / newick
  Manipulate and generate figures for trees in Newick format
  ☆21Updated last year
• rderelle / Broccoli
  orthology assignment using phylogenetic and network analyses
  ☆46Updated 3 months ago
• bayesiancook / phylobayes
  PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)
  ☆14Updated 3 years ago
• dvdylus / read2tree
  ☆20Updated 2 years ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆25Updated last month
• nextgenusfs / redmask
  Genome assembly soft-masking using Red (REpeat Detector)
  ☆12Updated 6 years ago
• BioinformaticsToolsmith / Red
  Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
  ☆15Updated 8 months ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆18Updated 2 months ago
• fmenardo / Treemmer
  Python tool to reduce size and redundancy of phylogenetic datasets
  ☆29Updated last year
• Plant-Food-Research-Open / assemblyqc
  A Nextflow pipeline for evaluating assembly quality
  ☆27Updated last month
• Rinoahu / SwiftOrtho
  A high performance tool to identify orthologs and paralogs across genomes.
  ☆27Updated last year
• balabanmetin / uDance
  ☆43Updated 9 months ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• jeffersonfparil / compare_genomes
  A comparative genomics workflow using Nextflow, conda, Julia and R
  ☆35Updated 8 months ago
• chaoszhang / A-pro
  ASTRAL for PaRalogs and Orthologs
  ☆21Updated 2 years ago
• bpucker / KIPEs
  Knowledge-based Identification of Pathway Enzymes (KIPEs) performs an automatic annotation of the flavonoid biosynthesis steps in a new t…
  ☆14Updated 6 months ago