iferres / MLSTarLinks
An easy way of MLSTyping your genomes in R.
☆19Updated 5 years ago
Alternatives and similar repositories for MLSTar
Users that are interested in MLSTar are comparing it to the libraries listed below
Sorting:
- R package for microbial pangenomics☆24Updated 3 years ago
- Tools for extracting individual genomes from metagenomes☆16Updated 2 years ago
- ☆22Updated 2 years ago
- a re-packaging of the sankey plot function for kraken reports taken from pavian and sankeyD3 from Florian Breitwieser☆14Updated 3 weeks ago
- Disty McMatrixface - compute a distance matrix from a core genome alignment file☆14Updated 2 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 7 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Hybrid Assembler for Plasmids☆10Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples☆12Updated 4 years ago
- ☆13Updated 8 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Tools for analyzing trees☆13Updated 8 months ago
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆21Updated 8 years ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Updated 3 years ago
- A script for comparing old vs new versions of genome annotations☆22Updated 2 years ago
- Interpretative standards for AMR genotypes☆26Updated 3 weeks ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆21Updated last year
- Working with the outputs of sourmash in R☆28Updated 2 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago
- Scripts used in the publication Tyler P. Barnum, Israel A. Figueroa, Charlotte I. Carlström, Lauren N. Lucas, Anna L. Engelbrektson, and …☆10Updated 6 years ago
- Create your own PanViz visualizations☆21Updated 8 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- De novo VIral Genome Annotator☆23Updated last year
- Download assembly files from NCBI☆13Updated 2 years ago
- C++ tools for NCBI taxonomy tasks☆11Updated 6 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- frame-shift correction for long-read (meta)genomics☆33Updated 2 years ago
- Dadaist2 🟨 Highway to R☆13Updated 9 months ago