will-rowe / grootLinks
A resistome profiler for Graphing Resistance Out Of meTagenomes
☆66Updated 5 years ago
Alternatives and similar repositories for groot
Users that are interested in groot are comparing it to the libraries listed below
Sorting:
- Split Kmer Analysis☆65Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆46Updated 4 years ago
- De novo Extraction of Strains from MetAgeNomes☆70Updated 5 years ago
- Recombination-free trees☆58Updated 3 months ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆48Updated 3 years ago
- Visualize whole genome alignments as linear maps☆73Updated 9 months ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- a collection of scripts for organising bacterial genomes by species☆77Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Pipeline to generate NGS reads from a phylogeny☆39Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 3 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆59Updated 4 years ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆69Updated 3 years ago
- Locus and lineage tests for bacterial GWAS☆29Updated 7 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆49Updated 9 months ago
- Gene-flank analysis tool☆28Updated 7 months ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆60Updated 5 years ago
- Toolkit for preparing genomes for submission to NCBI☆30Updated 3 years ago
- Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).☆49Updated 3 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Pan-Genomic Matching Statistics☆52Updated last year
- Harmonization of AMR predictor tool outputs☆26Updated 6 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆64Updated 2 years ago