Discussion on pre-processing Illumina data

[lflc]

Hi,

I am new in Bioinformatics, and I would like to know what kind of pre-processing ( ex.: trimming, filtering) you do with Illumina data, depending of your data and objectives, example if is RNAseq, or SNPs , or deepening on the tools you will use.

I would like to know from experts what are the steps and criteria they use to pre-process the data and some advices also. I am trying to make some kind of guideline with that information.


Thank you.

[GenoMax]

There are independent threads on most of the individual steps on SeqAnswers but you can start here at the various how-to's: http://seqanswers.com/wiki/How-to