Alternatives and similar repositories for veryfasttree

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

• bcgsc / ntSynt
  Detecting multi-genome synteny using minimizer graph mapping
  ☆78Updated 2 weeks ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆40Updated 5 months ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆85Updated 3 months ago
• AllTheBacteria / AllTheBacteria
  Follow up to Grace Blackwell's 661k dataset, for 2023
  ☆102Updated 3 weeks ago
• bcgsc / LongStitch
  Correct and scaffold assemblies using long reads
  ☆51Updated last year
• mourisl / centrifuger
  Classifier for metagenomic sequences using FM-index with run-block compressed BWT.
  ☆58Updated 2 weeks ago
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆76Updated last month
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆94Updated 7 months ago
• epi2me-labs / wf-bacterial-genomes
  Small variant calling for haploid samples
  ☆35Updated 2 weeks ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆80Updated last year
• bcgsc / ntEdit
  ✏️ Genome assembly polishing & SNV detection
  ☆68Updated 2 months ago
• iqtree / iqtree3
  IQ-TREE version 3: software for phylogenetics
  ☆40Updated this week
• filip-husnik / pseudofinder
  Detection of pseudogene candidates in bacterial and archaeal genomes.
  ☆49Updated last year
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆78Updated 8 months ago
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆117Updated last month
• metagenlab / mummer2circos
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆104Updated last year
• gatech-genemark / ProtHint
  Protein hint generation pipeline for gene finding in eukaryotic genomes
  ☆57Updated last year
• rpetit3 / dragonflye
  Assemble bacterial isolate genomes from Nanopore reads
  ☆127Updated 3 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆83Updated 2 weeks ago
• JLSteenwyk / PhyKIT
  a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
  ☆69Updated 2 weeks ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆47Updated this week
• neherlab / pangraph
  A bioinformatic toolkit to align genome assemblies into pangenome graphs
  ☆103Updated last month
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆60Updated 2 months ago
• bede / hostile
  Precise host read removal
  ☆95Updated last month
• ssolo / ALE
  Amalgamated likelihood estimation (ALE) is a probabilistic approach to exhaustively explore all reconciled gene trees that can be amalgam…
  ☆48Updated 2 months ago
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆85Updated last year
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆129Updated last month
• 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
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆62Updated 4 months ago