epi2me-labs / wf-templateLinks
Nextflow workflow template repository
☆20Updated last month
Alternatives and similar repositories for wf-template
Users that are interested in wf-template are comparing it to the libraries listed below
Sorting:
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆46Updated last week
- CRyPTIC data processing pipelines☆34Updated last year
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆41Updated last year
- ☆32Updated 2 months ago
- This repository hosts a large collection of Nextflow snippets☆56Updated last year
- ☆26Updated 2 years ago
- A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt☆31Updated 5 years ago
- Simple utility to concatenate .fastq(.gz) files whilst creating a summary of the sequences.☆51Updated 2 months ago
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆22Updated 2 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 3 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆65Updated 2 years ago
- Scripts and programs for the Holt Lab's MinION desktop☆32Updated 5 years ago
- ☆30Updated last year
- catalog for long-read sequencing tools☆32Updated 2 years ago
- A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate☆30Updated 3 years ago
- InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..☆31Updated 2 years ago
- Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers☆34Updated last year
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆77Updated 9 years ago
- A short analysis of Oxford Nanopore consensus accuracy for bacterial genome assemblies☆60Updated 6 years ago
- High-quality Nanopore-only genome polisher☆69Updated last year
- The buttery eel - a slow5 guppy/dorado basecaller wrapper☆41Updated this week
- In-depth characterization and annotation of differences between two sets of DNA sequences☆63Updated 5 years ago
- Primer schemes for real-time genome epidemiology☆30Updated 2 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- Benchmark datasets for WGS analysis☆39Updated 6 years ago
- de novo virus assembler of Illumina paired reads☆58Updated 4 years ago
- ☆29Updated 3 months ago
- Params validation plugin for Nextflow pipelines☆48Updated last year