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Old 01-27-2012, 04:33 AM   #1
LizBent
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Location: Guelph, Ontario, Canada

Join Date: Jan 2012
Posts: 31
Default Process to remove primers, adapters, etc. from Illumina data

Hi all,

I have some Illumina paired-end (100 bp) read data and have seen this very useful page: http://intron.ccam.uchc.edu/groups/t...Sequences.html

It has some primer adapter sequences and primer sequences in it. My question is, do I have to remove any additional sequences than the ones on this page and the primers I used to amplify my cDNA, such as the index primers? Is the sequence for index primers the same as the PE sequencing or PCR primers given in the link above, with just the index tag added?

Should I worry about reverse complementing all of these and removing those sequences as well?

Liz
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