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Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the …
mitoLeaf is an interactive tool for visualizing and exploring mitochondrial DNA (mtDNA) lineages and their evolutionary relationships, helping users explore genetic diversity and maternal ancestry.
Multilocus sequence typing by blast using the schemes from PubMLST
The scripts for creating the typing database used by the MLST code.
The Pathogenwatch MLST/cgMLST assignment tool
Download alleles and profiles from PubMLST and BIGSdb Pasteur
KHajji / cgmlst-dists
Forked from tseemann/cgmlst-dists🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Loop Habit Tracker, a mobile app for creating and maintaining long-term positive habits
A DSL for data-driven computational pipelines
GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click the first link to launch: https://achtman-lab.github.io/Gra…
Friends don't let friends make certain types of data visualization - What are they and why are they bad.
🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
For all your cluster needs
🧬 gget enables efficient querying of genomic reference databases
Tutorial for visualising admixture on a map
Bayesian hierarchical model for complex trait analysis