Simple bacterial assembly and annotation pipeline
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Updated
Jun 3, 2024 - Nextflow
Simple bacterial assembly and annotation pipeline
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
Assembly and binning of metagenomes
Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
SARS-CoV-2 workflow for nanopore sequence data
Assembly and intrahost/low-frequency variant calling for viral samples
Basic workflow for nanopore sequencing data
Nextflow pipeline to assemble genomes from nanopore reads.
Pathogen whole genome sequence (WGS) data analysis pipeline
A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxa to identify (and remove) are Homo and Homo sapiens. Removal is optional.
Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
Taxonomic profiling ONT metagenomics reads using minimap2
A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies
Course for ROPES summer school, May 2023
UNDER CONSTRUCTION: Hybrid genome assembly pipeline using a combination of long and short sequencing reads
Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.
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