replikation / poreCov
SARS-CoV-2 workflow for nanopore sequence data
☆40Updated this week
Alternatives and similar repositories for poreCov:
Users that are interested in poreCov are comparing it to the libraries listed below
- ARTIC SARS-CoV-2 workflow and reporting☆50Updated 3 months ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆44Updated 3 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- This repository hosts a large collection of Nextflow snippets☆57Updated 2 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 9 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆58Updated 6 months ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- Visualize whole genome alignments as linear maps☆71Updated 6 months ago
- Protein Alignment and Detection Interface☆61Updated last year
- Standard database for the TBProfiler tool☆29Updated 3 weeks ago
- StrainFinder☆26Updated 6 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 3 years ago
- Remove lambda phage reads from a fastq file☆29Updated 2 years ago
- Split Kmer Analysis☆63Updated 2 years ago
- Primer schemes for real-time genome epidemiology☆27Updated last year
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆36Updated last month
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt☆30Updated 4 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- Computational workflows for metagenomics tasks, by the Bhatt lab☆46Updated 2 years ago
- Params validation plugin for Nextflow pipelines☆49Updated 7 months ago
- IS mapping software☆53Updated 3 years ago
- Nextflow workflow template repository☆18Updated last week
- More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original☆52Updated 2 years ago
- ☆52Updated 3 years ago
- SHOOT.bio - the phylogenetic search engine☆24Updated last year
- MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.☆14Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- StaG Metagenomic Workflow Collaboration☆29Updated 7 months ago
- catalog for long-read sequencing tools☆32Updated 2 years ago