Alternatives and similar repositories for TreeCluster:

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

• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆79Updated last year
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆68Updated 3 months ago
• gatech-genemark / ProtHint
  Protein hint generation pipeline for gene finding in eukaryotic genomes
  ☆56Updated last year
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆82Updated 2 years ago
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆56Updated 2 months ago
• filip-husnik / pseudofinder
  Detection of pseudogene candidates in bacterial and archaeal genomes.
  ☆48Updated last year
• genomehubs / blobtoolkit
  Interactive quality assessment of genome assemblies
  ☆99Updated 3 weeks ago
• deprekate / PHANOTATE
  PHANOTATE: a tool to annotate phage genomes.
  ☆74Updated 4 months ago
• epi2me-labs / wf-bacterial-genomes
  Small variant calling for haploid samples
  ☆34Updated 2 months ago
• BenoitMorel / GeneRax
  ☆71Updated last year
• nvelden / geneviewer
  An R package designed for drawing gene arrow maps
  ☆76Updated this week
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆91Updated last month
• fmenardo / Treemmer
  Python tool to reduce size and redundancy of phylogenetic datasets
  ☆36Updated last year
• rderelle / Broccoli
  orthology assignment using phylogenetic and network analyses
  ☆46Updated last month
• AllTheBacteria / AllTheBacteria
  Follow up to Grace Blackwell's 661k dataset, for 2023
  ☆97Updated this week
• JLSteenwyk / ClipKIT
  a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference
  ☆71Updated 2 months ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆93Updated 7 months ago
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆89Updated 5 months ago
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆76Updated 3 weeks ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆85Updated 2 years ago
• metagenlab / mummer2circos
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆102Updated last year
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆103Updated 3 years ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆81Updated 2 weeks ago
• ablab / viralVerify
  viralVerify: viral contig verification tool
  ☆68Updated 3 years ago
• moshi4 / COGclassifier
  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
  ☆62Updated last week
• ssolo / ALE
  Amalgamated likelihood estimation (ALE) is a probabilistic approach to exhaustively explore all reconciled gene trees that can be amalgam…
  ☆47Updated last month
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆114Updated 11 months ago
• evogytis / baltic
  baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…
  ☆101Updated last week
• neherlab / pangraph
  A bioinformatic toolkit to align genome assemblies into pangenome graphs
  ☆102Updated 2 weeks ago
• JLSteenwyk / PhyKIT
  a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
  ☆69Updated 4 months ago