WGS-TB / MentaLiST
The MLST pipeline developed by the PathOGiST research group
☆35Updated 9 months ago
Related projects: ⓘ
- A tool for removing redundant genomes from a set of assemblies☆67Updated last year
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆25Updated 11 months ago
- Split Kmer Analysis☆62Updated 2 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆42Updated 4 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆37Updated 3 years ago
- ☆43Updated 2 months ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆24Updated 2 weeks ago
- Predict plasmids from uncorrected long read data☆39Updated 4 years ago
- ☆51Updated 3 years ago
- a collection of scripts for organising bacterial genomes by species☆75Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆46Updated 3 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆35Updated last month
- Estimate metagenomic coverage and sequence diversity☆44Updated last month
- Automated strain separation of low-complexity metagenomes☆47Updated 2 years ago
- whole genome MLST analysis☆35Updated 4 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆50Updated 3 weeks ago
- ☆32Updated 2 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated 5 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆44Updated 5 months ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆68Updated last month
- Predict MLST directly from uncorrected long reads☆25Updated 2 years ago
- Recombination-free trees☆55Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆51Updated last year
- in silico typing of the H. influenzae cap locus☆11Updated 2 months ago
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- IS mapping software☆50Updated 2 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆42Updated 4 years ago
- A MinION-based pipeline for tracking species biodiversity☆12Updated 7 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆46Updated last year