PROBIC / mGEMSLinks
mGEMS Genomic epidemiology with mixed samples
☆15Updated last year
Alternatives and similar repositories for mGEMS
Users that are interested in mGEMS are comparing it to the libraries listed below
Sorting:
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 6 months ago
- Recombination-free trees☆64Updated 3 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆62Updated 8 months ago
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- Plasmid analysis using rearrangement distances☆49Updated 3 months ago
- Colinear block visualisation tool☆31Updated last year
- Archived - please see updated sccmec tool at link below☆13Updated last year
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 4 months ago
- Plasmid exploration of bacterial genomes☆23Updated 3 years ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year
- Order and orientation of complete bacterial genomes☆29Updated 5 months ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- Predict MLST directly from uncorrected long reads☆27Updated last month
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.☆16Updated 9 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 5 months ago
- Predict plasmids from uncorrected long read data☆41Updated last month
- viralFlye pipeline☆18Updated last year
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Genome size estimation from long read overlaps☆79Updated 3 weeks ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- List and download schemes from pubMLST.org and other BIGSDB servers☆10Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Updated 4 years ago
- Remove human reads from a sequencing run☆46Updated last week
- Metagenomic Analysis in Real Time☆29Updated last month
- Bacterial GWAS analysis☆46Updated 2 months ago
- Calculate assocations between genes and traits☆29Updated 9 months ago