Alternatives and similar repositories for plot_phylo

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

• cruizperez / FastAAI
  ☆24Updated 7 months ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated last week
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆53Updated 4 months ago
• jolespin / pykofamsearch
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆13Updated last month
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated 4 months ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆41Updated 4 months ago
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆49Updated last month
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated this week
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated last year
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆19Updated 8 months ago
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆31Updated last month
• LuoGroup2023 / PanTax
  PanTax: Strain-level metagenomic profiling using pangenome graphs
  ☆41Updated last week
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆37Updated last year
• compgenomicslab / TreeProfiler
  tree visualization for tree + annotation data
  ☆39Updated 2 months ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 5 months ago
• nextgenusfs / funannotate2
  Eukaryotic genome annotation software.
  ☆18Updated 3 weeks ago
• SegataLab / viromeqc
  ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…
  ☆19Updated 2 years ago
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆30Updated last year
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆59Updated last week
• althonos / pyrodigal-gv
  A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
  ☆18Updated last week
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆43Updated last month
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆23Updated last month
• bluenote-1577 / fairy
  alignment-free coverage calculation for metagenomic binning >100 times faster
  ☆47Updated 5 months ago
• bluenote-1577 / myloasm
  A new high-resolution long-read metagenome assembler for even noisy reads
  ☆79Updated last month
• moshi4 / MGCplotter
  Microbial Genome Circular plotting tool for comparative genomics using Circos
  ☆38Updated 2 years ago
• Yasas1994 / Jaeger
  Jaeger is a quick and precise tool for detecting phages in sequence assemblies.
  ☆33Updated last month
• niemasd / ViralConsensus
  Fast viral consensus genome reconstruction
  ☆23Updated last month
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated 3 weeks ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year