Alternatives and similar repositories for xgt

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

• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆40Updated last month
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆14Updated 8 months ago
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆54Updated last week
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆39Updated last year
• nick-youngblut / traitar3
  From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)
  ☆21Updated last year
• martinghunt / ziplign
  Simple-to-use interactive comparison of two bacterial genomes
  ☆19Updated last month
• rcedgar / newick
  Manipulate and generate figures for trees in Newick format
  ☆22Updated 5 months ago
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆20Updated last year
• esteinig / sketchy
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆42Updated 3 years ago
• wh-xu / Hyper-Gen
  HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors
  ☆30Updated last year
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆28Updated 4 months ago
• phiweger / uv
  Finding prophage regions in bacterial genomes using brute force
  ☆22Updated 2 years ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆39Updated 10 months ago
• vinisalazar / metaphor
  Metaphor: a general-purpose workflow for assembly and binning of metagenomes
  ☆40Updated 2 months ago
• pirovc / multitax
  Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
  ☆47Updated 6 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 3 weeks ago
• sourmash-bio / mastiff
  ☆16Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆47Updated last month
• KatyBrown / plot_phylo
  Python package to plot a phylogenetic tree on an existing matplotlib axis.
  ☆27Updated 5 months ago
• dhelekal / CaveDive
  ☆18Updated last year
• shenwei356 / strobemers
  A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)
  ☆14Updated 4 years ago
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆15Updated 5 months ago
• jolespin / pykofamsearch
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆15Updated this week
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆80Updated last month
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• Kalan-Lab / codoff
  codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the…
  ☆13Updated this week
• taxburst / taxburst
  sunburst plots for taxonomy - working to update Krona
  ☆43Updated 3 months ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆24Updated 6 years ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆40Updated 3 months ago
• dib-lab / genome-grist
  map Illumina metagenomes to genomes!
  ☆38Updated last month