peterk87 / nf-flu
Influenza genome analysis Nextflow workflow
☆22Updated 2 weeks ago
Related projects ⓘ
Alternatives and complementary repositories for nf-flu
- Influenza genome analysis Nextflow workflow☆17Updated 2 weeks ago
- Influenza data pipeline to automate genotyping assignment☆22Updated 3 weeks ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆27Updated 4 months ago
- ☆27Updated last year
- Split Kmer Analysis☆63Updated 2 years ago
- whole genome MLST analysis☆38Updated 6 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆29Updated last month
- UPHL's Reference Free Pipeline☆25Updated 2 weeks ago
- Ancient microbiome snakemake workflow☆21Updated 4 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 weeks ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆19Updated last year
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- Recombination-free trees☆56Updated last year
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- ☆51Updated 3 years ago
- Gene-flank analysis tool☆26Updated 6 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆28Updated last year
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆25Updated last month
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆25Updated last week
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆27Updated 6 months ago
- tools for assessing the accuracy of genome assemblies☆34Updated 7 months ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆33Updated 2 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated last year
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆15Updated 3 months ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated last year
- de.NBI Nanopore Training Course☆19Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year