Alternatives and similar repositories for xgt

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

• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 3 months ago
• bede / deacon
  Fast (host) DNA sequence filtering
  ☆33Updated last week
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆51Updated last month
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆33Updated 2 months ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated 3 weeks ago
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆48Updated 2 weeks ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆56Updated last month
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆39Updated 3 weeks ago
• dhelekal / CaveDive
  ☆17Updated 11 months ago
• martinghunt / tna
  ☆16Updated 2 months ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆13Updated 3 weeks ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated 8 months ago
• nick-youngblut / traitar3
  From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)
  ☆22Updated 11 months ago
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆33Updated last year
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆37Updated 7 months ago
• KatyBrown / plot_phylo
  Python package to plot a phylogenetic tree on an existing matplotlib axis.
  ☆22Updated 3 months ago
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆18Updated 5 months ago
• shandley / awesome-virome
  A listing of software, tools and databases useful for virome analysis
  ☆36Updated this week
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated 2 weeks ago
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆40Updated 8 months ago
• bluenote-1577 / devider
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆24Updated 6 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 4 months ago
• jolespin / pykofamsearch
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆11Updated 7 months ago
• LuoGroup2023 / PanTax
  PanTax: Strain-level metagenomic profiling using pangenome graphs
  ☆35Updated 3 weeks ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 3 years ago
• colindaven / guppy_on_slurm
  Splitting and accelerating the Oxford Nanopore basecaller guppy using CPU with the SLURM job scheduler
  ☆16Updated 11 months ago
• jermp / fulgor
  ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆50Updated this week
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆29Updated 2 months ago
• bluenote-1577 / fairy
  alignment-free coverage calculation for metagenomic binning >100 times faster
  ☆44Updated 2 months ago