Methylation-seq analysis
Runs with methylation sequencing data. It pre-processes raw data from FastQ inputs, aligns the reads and performs extensive quality-control on the results, using either Bismark or bwa-meth/MethylDackel.
Methyl-Seq is a bioinformatics best-practice analysis pipeline used for DNA Methylation sequencing data analysis. The pipeline uses Nextflow, a bioinformatics workflow tool. It pre-processes raw data from FastQ inputs, aligns the reads and performs extensive quality-control on the results. The pipeline allows you to choose between running either Bismark or bwa-meth / MethylDackel (Bismark is run per default at NGI)
nf-core/methylseq
https:
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel - https://nf-co.re/methylseq
When we run analysis
We run this analysis routinely for human DNA-methylation projects where we have prepared the sequencing library in-house. The analysis works with other species that have a reference genome available in AWS-iGenomes. However, for non-human projects, we offer this analysis based on our current capacity and available resources. If you are unsure whether we can run the pipeline for your project, please don’t hesitate to contact us.
Input data
bcl2fastq demultiplexed FastQ files and a genome reference.
Results
The pipeline generates aligned BAM-files and methylation calls along with numerous quality control metrics. For more information, please see https://nf-core/methylseq/.
Last Updated: 13th November 2024