CFSAN-Biostatistics / C-WAPLinks
SC2 variant detection and composition pipeline
☆17Updated 2 years ago
Alternatives and similar repositories for C-WAP
Users that are interested in C-WAP are comparing it to the libraries listed below
Sorting:
- ☆37Updated 3 years ago
- ASMNGS20 - 2020 Conference Details☆15Updated 3 years ago
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago
- Split Kmer Analysis☆67Updated 3 years ago
- Recombination-free trees☆63Updated 4 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 2 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Updated 4 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 6 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆63Updated 10 months ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆32Updated 8 months ago
- Long read metagenomics practical at EBAME18☆18Updated 7 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Gene Absence Presence Identification tool.☆27Updated 9 months ago
- Code Safety Inspection Service☆20Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆27Updated last year
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆61Updated 2 years ago
- ☆37Updated 9 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 2 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆60Updated this week
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Updated last year
- ☆57Updated last month
- A tool for removing redundant genomes from a set of assemblies☆78Updated 4 months ago
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆93Updated last month
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 5 months ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated last week
- Order and orientation of complete bacterial genomes☆29Updated 6 months ago