General NGS data analysis
Summer School in Bioinformatics & NGS Data Analysis (NGSchool2016) was held on August 14-21, 2016 in Dolný Smokovec, Slovakia. In the course of one week, the participants attended the series of lectures and workshops, covering various aspects of Computational Biology, focusing on state-of-the-art techniques related to Next-Generation Sequencing (NGS) and its application in research, health-care and industry. The school was mainly addressed to students and researchers in early stage of their careers. Nevertheless, we also invited more advanced researchers to apply.
Materials from the school are available on GitHub. We covered the following topics:
We taught both, command-line (Linux) and online (Galaxy) tools. People having no prior experience with Bioinformatics were welcome, but strong motivation was desired! Participants were supposed to bring their own laptops with Ubuntu installed! We provided some toy examples, but we encouraged people to bring their own datasets. The course was held in English.
You can find detailed programme draft below. We had morning (9-13) and afternoon (14-18) sessions, with coffee breaks ~11:00 and ~16:00. Breakfast was served from 8:00, lunch at 13:00 and dinner around 19:00.
|Welcome & Shot talks|
|Introduction to Linux||Roman Cheplyaka|
|Introduction to Bioinformatics & NGS||Tomáš Vinař / Broňa Brejová|
|Genome & transcriptome assembly||Leszek Pryszcz / German Demidov|
|Functional genome annotation||Marina Marcet-Houben|
|Introduction to Statistics & R||German Demidov|
|CNV detection||German Demidov|
|Differential expression||Leszek Pryszcz|
|Library construction for NGS||Paulina Stachula|
|From ChIP-seq to Hi-C||Bartek Wilczyński|
|Bisulphite sequencing||Russell Hamilton|
|Shot talks #2||Leszek Pryszcz|
|Molecular data integration||Jacek Marzec|
|NGS & Biomedicine||Sophia Derdak|
|Recap & farewell|