Alternatives and similar repositories for xgt:

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

• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆52Updated last week
• shandley / awesome-virome
  A listing of software, tools and databases useful for virome analysis
  ☆30Updated this week
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆36Updated last month
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆18Updated 4 months ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆29Updated 3 weeks ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆37Updated 2 weeks ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆13Updated 2 months ago
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆37Updated this week
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆40Updated 6 months ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆36Updated 6 months ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated 6 months ago
• martinghunt / tna
  ☆14Updated 3 weeks ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 3 months ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated last week
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated 2 weeks ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 3 months ago
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆32Updated last year
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆50Updated 2 weeks ago
• dhelekal / CaveDive
  ☆17Updated 10 months ago
• mbhall88 / psdm
  Compute a pairwise SNP distance matrix from one or two alignment(s)
  ☆25Updated 7 months ago
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆22Updated 3 weeks ago
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated last month
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆45Updated last week
• mbhall88 / NanoVarBench
  Evaluating Nanopore-based bacterial variant calling
  ☆18Updated 4 months ago
• bluenote-1577 / fairy
  alignment-free coverage calculation for metagenomic binning >100 times faster
  ☆41Updated last month
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆14Updated 5 months ago
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated 2 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 6 years ago