BU-ISCIII / bacterial_wgs_trainingLinks
In this training course you will find theory and practice material for introducing yourself to wgs analysis for bacterial, including outbreak investigation.
☆3Updated 7 months ago
Alternatives and similar repositories for bacterial_wgs_training
Users that are interested in bacterial_wgs_training are comparing it to the libraries listed below
Sorting:
- A pipeline for Bacterial Whole genome sequence data analysis☆15Updated 2 years ago
- Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics usin…☆24Updated 4 months ago
- Various scripts for efficient processing of 10k Salmonella genomes☆14Updated 3 years ago
- Targeted Detection and Reconstruction of Plasmids☆20Updated last year
- vSNP -- validate SNPs☆21Updated 8 months ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- ☆36Updated 3 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Intra-species bacterial contamination detection☆25Updated 3 months ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- whole genome MLST analysis☆43Updated 2 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆25Updated 8 months ago
- Bacterial genomes finishing tool for structural insights on draft genomes☆24Updated last year
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Bacterial taxonomy construction and evaluation in R☆13Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 3 months ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆24Updated 3 months ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 7 years ago
- Quality control plotting for long reads☆10Updated last year
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆9Updated 4 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Calculate assocations between genes and traits☆23Updated 2 months ago
- ☆18Updated 3 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 10 months ago