- Data processing and analyses for differential DNA methylation with Illumina EPIC arrays and Bisulfite-seq
- ChIP-seq: overview of the methods, peak calling, peak independent/dependent quality metrics, joint visualization of different chromatin marks
- ATAC-seq: peak calling, peak independent/dependent quality metrics, differential accessibility analysis
- Integrative visualizations of epigenomics datasets
- Motif analyses: PWMs, motif enrichment, regression-based approaches
- Functional analyses, including finding nearest genes and custom features, GO terms and Reactome pathways enrichment
- Introduction to analysis of single cell omics such as scATAC-seq
- To be able to follow the tutorials:
- BYOL, bring your own laptop with R and RStudio installed
- Basic knowledge in Linux
- Basic R programming experience
- To make the learning experience easier:
- Experience working on the SNIC center Uppmax or another HPC
- Previous experience with NGS data analyses
- Completing NBIS workshops “Introduction to Bioinformatics using NGS data” and “R Programming Foundations for Life Scientists” or equivalent
- Due to limited capacity the workshop can accommodate maximum of 25 participants. If we receive more applications, participants will be selected based on several criteria. Selection criteria include correct entry requirements, motivation to attend the course as well as gender and geographical balance.
- NBIS prioritizes academic participants, especially PhD students affiliated with Swedish universities. We warmly welcome international and/or non-academic participants when we have seats available and the requirements criteria are met.