epi2me-labs / wf-flu
☆17Updated 2 weeks ago
Alternatives and similar repositories for wf-flu:
Users that are interested in wf-flu are comparing it to the libraries listed below
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- UPHL's Reference Free Pipeline☆26Updated this week
- Predict MLST directly from uncorrected long reads☆27Updated 2 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆27Updated 2 months ago
- Influenza genome analysis Nextflow workflow☆19Updated last month
- Basic workflow for nanopore sequencing data☆15Updated 3 weeks ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- ☆24Updated last month
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆32Updated 3 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆56Updated last month
- Phylotype your strains using Clermont's 2013 method: ezclermont.org☆10Updated 2 years ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Intra-species bacterial contamination detection☆25Updated 2 weeks ago
- in silico typing of the H. influenzae cap locus☆11Updated 7 months ago
- A MinION-based pipeline for tracking species biodiversity☆13Updated last year
- whole genome MLST analysis☆40Updated 9 months ago
- Influenza data pipeline to automate genotyping assignment☆29Updated 3 weeks ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆23Updated last year
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- plasmidVerify: plasmid contig verification tool☆12Updated 4 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated last week
- Gene-flank analysis tool☆27Updated 2 months ago
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13Updated 2 years ago
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆45Updated 9 months ago
- Quality control plotting for long reads☆10Updated 9 months ago
- Calculate assocations between genes and traits☆23Updated 4 months ago