I get my first 454 data this afternoon!

[genehuntergirl]

Hi all,


I'm a PhD student from NZ about to delve into next gen sequencing for my project. No one in my group has any idea with what to do but lucky we have a guy in our department who showed me how to get started with Linux (which is the easy bit!). Normally I just do linkage and Sanger sequencing to find my patient's mutations...
I'll probably be extensively using this forum over the next wee while as I figure out how to analyse my data. My PI has also told me he wants me to set up some whole exon capture with Illumina over the next few months. Anyone used Aligent SureSelect and found it good/bad? And is there a good online tute for all this SAM tools Bowtie stuff...?

-Cheers!

[GW_OK]

Agilent Sureselect is good. Check out Galaxy for a good online bioinformatics suite with a relatively friendly GUI and video tutorials.

[genehuntergirl]

Thanks. I've been using Galaxy for filtering CNV data (really handy when you've got monozygotic twins with discordant disease phenotypes) so I'm somewhat familiar with it already. I really need to track down someone local though to help me make the most of the data!