epi2me-labs / wf-fluLinks
☆19Updated 3 weeks ago
Alternatives and similar repositories for wf-flu
Users that are interested in wf-flu are comparing it to the libraries listed below
Sorting:
- UPHL's Reference Free Pipeline☆27Updated 3 weeks ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 9 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 weeks ago
- Influenza data pipeline to automate genotyping assignment☆37Updated last month
- Assembly of Nanopore Sequencing☆16Updated 3 weeks ago
- Predict plasmids from uncorrected long read data☆41Updated 3 weeks ago
- A pipeline for bioinformatics analysis of bacterial genomes☆31Updated this week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 4 months ago
- Archived - please see updated sccmec tool at link below☆13Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆31Updated 6 months ago
- Extract subsets of ONT (Nanopore) reads based on time☆23Updated last year
- Plasmid analysis using rearrangement distances☆46Updated 2 months ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆27Updated last year
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆44Updated last month
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- Order and orientation of complete bacterial genomes☆29Updated 4 months ago
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 6 months ago
- Bacterial surveillance pipeline.☆26Updated last month
- Strain-level haplotyping for metagenomes with short or long-reads.☆56Updated 7 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 3 months ago
- Comprehensive resistance detection from WGS data☆19Updated 2 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 2 months ago
- Population analysis PIPEline 🛠🧬☆22Updated 6 months ago
- Recombination-free trees☆60Updated 2 months ago