Alternatives and similar repositories for Phylign

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

• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆63Updated 8 months ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆42Updated 4 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆52Updated 4 years ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆44Updated 9 months ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated 3 months ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆28Updated 4 months ago
• esteinig / sketchy
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆42Updated 2 years ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆47Updated 3 weeks ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆34Updated last week
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆39Updated 10 months ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆14Updated 7 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 2 weeks ago
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆79Updated last month
• martinghunt / ziplign
  Simple-to-use interactive comparison of two bacterial genomes
  ☆19Updated 2 weeks ago
• rrwick / Verticall
  Recombination-free trees
  ☆63Updated 4 months ago
• niemasd / ViralConsensus
  Fast viral consensus genome reconstruction
  ☆25Updated 6 months ago
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆31Updated 5 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• LuoGroup2023 / PanTax
  PanTax: Strain-level metagenomic profiling using pangenome graphs
  ☆45Updated 4 months ago
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 6 years ago
• sourmash-bio / sourmash_plugin_branchwater
  fast, multithreaded sourmash operations: search, compare, and gather.
  ☆25Updated last week
• tongzhouxu / mashpit
  Sketch-based surveillance platform
  ☆13Updated last year
• bacpop / pp-sketchlib
  Library of sketching functions used by PopPUNK
  ☆31Updated 9 months ago
• kangxiongbin / StrainXpress
  StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…
  ☆13Updated last year
• hzi-bifo / Haploflow
  ☆30Updated 2 years ago
• pirovc / multitax
  Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
  ☆47Updated 5 months ago
• dhelekal / CaveDive
  ☆18Updated last year
• EnzoAndree / FastMLST
  ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies
  ☆27Updated last month