DOH-JDJ0303 / bigbacter-nfLinks
Bacterial surveillance pipeline.
☆26Updated this week
Alternatives and similar repositories for bigbacter-nf
Users that are interested in bigbacter-nf are comparing it to the libraries listed below
Sorting:
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated this week
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- emm Automatic Isolate Labeller☆12Updated 6 months ago
- UPHL's Reference Free Pipeline☆26Updated this week
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆56Updated last week
- Code Safety Inspection Service☆20Updated 3 years ago
- µbinfie blog☆18Updated 2 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆63Updated 3 months ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 8 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Interpretative standards for AMR genotypes☆25Updated 3 weeks ago
- Calculate assocations between genes and traits☆28Updated 7 months ago
- ☆27Updated 4 months ago
- REcombination BARcode detector.☆16Updated last year
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆41Updated last week
- ☆10Updated 5 months ago
- Order and orientation of complete bacterial genomes☆28Updated 3 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Recombination-free trees☆60Updated last month
- Nextflow Pipeline for processing Streptococcus pneumoniae sequencing raw reads (FASTQ files) by the GPS Project (Global Pneumococcal Sequ…☆19Updated last week
- Extract subsets of ONT (Nanopore) reads based on time☆22Updated last year
- Influenza data pipeline to automate genotyping assignment☆37Updated 4 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆26Updated 3 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago