Forum:[Please share] How do you keep your NGS data analysis methods/ strategies up to date? (e.g. Data sub-groupping, datasets overlapping, etc.)

Question

[chiefcat]

Hi everyone,

I am new in analyzing NGS data. Just want to ask how do you guys learn the strategies/ get yourself update in analyzing genome-wide data? (e.g. data sub-groupping, filtering, illustration methods)

Although many studies employ genome-wide data analysis, it is impossible to read them all.

Which journals do you guys think they are worth spending time on reading?

Thanks!

Answer 1

[Pierre Lindenbaum]

I try to use "GATK Best Practices" https://software.broadinstitute.org/gatk/best-practices/

Answer 2

[Renesh]

This is a very good question and common to all people. I follow these steps to keep up to date with NGS analysis tasks,

1. Prepare your software pipeline for analysis of specific NGS task eg. RNA-seq, CHIP-seq
2. Use the up to date and highly cited tools in your pipeline (you have to do literature, forums, blogs, and repositories review to get this idea)
3. Keep track of high-impact journals, news websites, and blogs that publish NGS related articles eg. Nature biotechnology, Nature methods, RNA-seq blogs etc.
4. Attend seminar and webinars related to NGS data analysis
5. Subscribe to company newsletters eg. Illumina

Answer 3

[Russ]

This question was addressed in Feb 2017 by Stephen Turner on his blog, and then on R-bloggers.

Here's his post: http://www.gettinggeneticsdone.com/2017/02/staying-current-in-bioinformatics-genomics-2017.html

And on R-bloggers: https://www.r-bloggers.com/staying-current-in-bioinformatics-genomics-2017-edition/