Alternatives and similar repositories for Phyloformer:

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

• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆30Updated 2 months ago
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆31Updated 2 years ago
• rcedgar / newick
  Manipulate and generate figures for trees in Newick format
  ☆21Updated 3 weeks ago
• 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 this week
• bayesiancook / phylobayes
  PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)
  ☆14Updated 3 years ago
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆32Updated last month
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆24Updated last year
• slimsuite / buscomp
  BUSCOMP: BUSCO Compiler and Comparison tool
  ☆21Updated 5 months ago
• NickJD / ORForise
  Comparison pipeline for Prokaryote Protein Coding Gene Predictors
  ☆22Updated 10 months ago
• Gaius-Augustus / Tiberius
  Tiberius is a deep learning gene finder.
  ☆48Updated this week
• blackrim / phyutility
  ☆21Updated 10 years ago
• gengit / PosiGene
  ☆26Updated 3 years ago
• AuReMe / mpwt
  Pathway Tools multiprocessing wrapper (for PathoLogic).
  ☆15Updated last month
• Rowena-h / BUSCOfilter
  A tool to filter BUSCO output into single-copy gene files for phylogenomics
  ☆12Updated 6 months ago
• Rinoahu / SwiftOrtho
  A high performance tool to identify orthologs and paralogs across genomes.
  ☆26Updated last year
• TravisWheelerLab / BATH
  Better Alignments with Translated HMMER
  ☆17Updated last week
• balabanmetin / uDance
  ☆43Updated 10 months ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆27Updated last year
• davidemms / STAG
  STAG: Species Tree from All Genes
  ☆33Updated 6 years ago
• dvdylus / read2tree
  ☆20Updated 2 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆36Updated last year
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆26Updated 2 months ago
• h836472 / ContScout
  ContScout sequence contamination filter tool
  ☆19Updated last month
• BenoitMorel / AleRax
  Gene tree - species tree reconciliation from gene tree distributions
  ☆26Updated 3 months ago
• simonwhelan / Divvier
  A program for divvying or partially filtering multiple sequence alignments
  ☆24Updated 5 years ago
• BioinformaticsToolsmith / Red
  Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
  ☆15Updated 9 months ago
• salzberg-lab / PSAURON
  PSAURON is a machine learning model for rapid assessment of protein coding gene annotation
  ☆31Updated last month