Illumina small RNAseq analysis pipeline?

Question

[datanerd]

Hello Bioinformaticians,

Iam under pressure to meet a deadline and hence have very limited time to work out a pipeline on my own. This is my first miRNA sequence analysis and so was looking if someone already has a published/updated pipeline for Illumina small rnaseq data. This would really really help me. This is the first analysis (so simple regular miRNA analysis is OK) and I can work on digging deeper later.

Please help if you know/have any.

Thanks!!!!!

Mamta

Answer 1

[User 59]

What organism? If it's mouse or human, you might as well launch a BaseSpace app: http://www.illumina.com/content/illumina-marketing/amr/en_US/informatics/research/sequencing-data-analysis-management/basespace/basespace-apps/mirnas-analysis-1001000.html - I think this is still free for the time being. If not, then the app workflow might give you some ideas of how to approach this.

You might also be interested in the UEA small RNASeq workbench: http://srna-workbench.cmp.uea.ac.uk/