NGS pipeline analyses

Question

[Kizuna]

Hi Biostars Users,

I am rookie in bio-informatics interested in undergoing NGS training to learn how to build NGS pipeline for whole exome sequencing analyses.

May you please guide me to find a suitable training program?

Best,
Kizuna

[Kizuna]

Tx David, however I am searching for trainings in WES.

[David Langenberger]

Well, around 90% of the analyses are the same. But of course, the downstream analysis (everything after mapping) is a bit different. Perhaps we will offer WES workshops next time! :)

[Kizuna]

Thank you!

Do you have any information on-site training programs held in institutes like EBI? Broad institute? Sanger institute?

[Ashutosh Pandey]

Sorry, I don't keep track of them but I am pretty sure that they offer variety of NGS training programs. If you search here on Biostars you may find such postings. For example, one such post is A: Upcoming Ngs Data Analysis Workshops 2014

Post it as a separate question if you need more help.

[Kizuna]

Sounds very interesting..

Many thanks, I will gladly download it and try it :)

I will let you know

kiz

Answer 1

[Ashutosh Pandey]

Some links.

• What Is The Best Pipeline For Human Whole Exome Sequencing?
• http://www.cureffi.org/2012/09/19/exome-sequencing-pipeline-using-gatk/
• http://seqanswers.com/wiki/How-to/exome_analysis
• http://www.gqinnovationcenter.com/services/bioinformatics/tutorials/tutorials.aspx?l=e

Answer 2

[David Langenberger]

Perhaps one of out trainings might be of interest to you!

Check out http://www.ecseq.com/training.html

Answer 3

[alistairnward]

Hi Kizuna,

We, in Gabor Marths lab at Boston College, have an NGS tool and pipeline launcher that is simple to use and can perform a variety of different analyses with prebuilt pipelines. Customizing pipelines is straightforward and we are always available to help. Check out our site at http://gkno.me. The package is easy to download, install and run.

Good luck,
Alistair Ward