January 23, 2015 at 5:44 pm #17988ecSeqParticipant
A Beginner’s Guide to NGS Data Analysis
Quality Control, Read Mapping, Visualization and Downstream Analyses
9. – 13. March 2015
Scope and Topics
The purpose of this workshop is to get a deeper understanding in Next-Generation Sequencing (NGS) with a special focus on bioinformatics issues. Additionally, all workshop participants should be enabled to perform important tasks of NGS data analysis tasks themselves.
The first workshop module is an introduction to data analysis using Linux, assuring that all participants are able to follow the practical parts. The second module dicusses advantages and disadvantages of current sequencing technologies and their implications on data analysis. The most important NGS file formats (fastq, sam/bam, bigWig, etc.) are introduced and one proceeds with first hands-on analyses (QC, mapping, visualization). You will learn how to read and interprete QC plots, clip adapter sequences and/or trim bad quality read ends, get bioinformatics backgrounds about the read mapping and understand its problems (dynamic programming, alignment visualization, NGS mapping heuristics, etc.), perform your own mapping statistics and visualize your data in different ways (IGV, UCSC, etc.). The last two modules adress two specific applications of NGS: RNA-seq of model organisms and RNA-seq of non-model organisms.
Find more information on the workshop website: http://www.ecseq.com/workshops/workshop_2015-01.html
April 21, 2015 at 3:37 pm #115702biologyhopkinsParticipant
I’m sorry I missed this. Have a healthy interest in data visualization and I could have easily made it to Leipzig. Shame.
April 29, 2015 at 3:23 pm #115711biologyhopkinsParticipant
In fact, I’ve recently come across this data vizualization software which I know my school’s lab has been using for analysis.Take a look. They make the dashboard really simple so you can concentrate on the data – presented in a compelling fashion. It’s opening up lots of differing perspectives on the same subject. Much like Bayesian statistics have over the past 20 years. I find it such an interesting and promising industry.
May 14, 2018 at 3:07 pm #116371Richa23Participant
Interesting stuff. I have been learning about NGS Data analysis and how it works. Analysis methods keeps evolving and there are many companies that do NGS data analysis on a contract basis. Are these companies worthwhile to use or should the analysis be mainly done inhouse. Ive heard of some that do good work such as Genevia Technologies (https://genevia.fi), but this is a scandic company far from “home”. Does this even matter? Lots of questions…
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