A-BN / ClermonTyping
Clermont PCR method In-Silico
☆19Updated last year
Alternatives and similar repositories for ClermonTyping:
Users that are interested in ClermonTyping are comparing it to the libraries listed below
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆56Updated 3 weeks ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- ☆19Updated 5 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated last year
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 10 months ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated last year
- Extract metadata from biosamples in NCBI☆12Updated 3 years ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 4 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆43Updated this week
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆20Updated last year
- Plasmid exploration of bacterial genomes☆18Updated 2 years ago
- Gene Absence Presence Identification tool.☆26Updated last year
- ☆24Updated 6 years ago
- IslandPath standalone software☆31Updated last year
- Downstream processing of VAMB binning for Viral Elucidation☆47Updated 7 months ago
- Phylotype your strains using Clermont's 2013 method: ezclermont.org☆10Updated 2 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆25Updated 3 months ago
- Calculate assocations between genes and traits☆22Updated 3 months ago
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13Updated 2 years ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆32Updated 3 years ago
- Predict MLST directly from uncorrected long reads☆26Updated 2 years ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆21Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 7 months ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆24Updated 10 months ago
- whole genome MLST analysis☆40Updated 9 months ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆26Updated 2 weeks ago