nickp60 / EzClermontLinks
Phylotype your strains using Clermont's 2013 method: ezclermont.org
☆11Updated 2 years ago
Alternatives and similar repositories for EzClermont
Users that are interested in EzClermont are comparing it to the libraries listed below
Sorting:
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated last month
- Calculate assocations between genes and traits☆23Updated 3 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 8 months ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆69Updated this week
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 7 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Clermont PCR method In-Silico☆21Updated last year
- Downstream processing of VAMB binning for Viral Elucidation☆50Updated 11 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated this week
- EzAAI - High Throughput Prokaryotic AAI Calculator☆42Updated 8 months ago
- ☆23Updated 4 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 11 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated 2 years ago
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆27Updated last week
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆35Updated 3 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆22Updated 3 years ago
- Interpretative standards for AMR genotypes☆21Updated 2 weeks ago
- Assembly of Nanopore Sequencing☆16Updated 2 weeks ago
- Jaeger is a quick and precise tool for detecting phages in sequence assemblies.☆31Updated last week
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Updated 2 years ago
- Recombination-free trees☆58Updated 3 months ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 3 weeks ago
- Assembly based core SNP alignments☆7Updated 2 years ago
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago
- Code Safety Inspection Service☆20Updated 2 years ago