angelovangel / nxf-kraken2Links
A simple nextflow pipeline for running kraken2 and bracken in a docker container
☆20Updated 4 years ago
Alternatives and similar repositories for nxf-kraken2
Users that are interested in nxf-kraken2 are comparing it to the libraries listed below
Sorting:
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- Gene-flank analysis tool☆27Updated 5 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 3 months ago
- whole genome MLST analysis☆43Updated 2 months ago
- Influenza genome analysis Nextflow workflow☆22Updated 2 months ago
- ☆26Updated last year
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 11 months ago
- Gene Absence Presence Identification tool.☆26Updated 2 months ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆36Updated 6 months ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Bacterial GWAS analysis☆40Updated last week
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated last month
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆25Updated this week
- Microbial agile accurate SNP Typer☆29Updated last year
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆29Updated 3 weeks ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 3 months ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆38Updated 7 months ago
- Identify phage regions in bacterial genomes for masking purposes☆32Updated 5 years ago
- Basic workflow for nanopore sequencing data☆16Updated this week
- Split Kmer Analysis☆65Updated 3 years ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago