small RNA seq question Miseq

[Neiltje]

Hi,

I'm new in sequencing, next week I'm going to prepare a small RNA library using NEBNExt Multiplex small RNA prep kit for Illumina from New England biolabs.
I'm watching some tutorials from Illumina and I'm stumbling on this:

Workflow: small RNA
What's It's Used For: Sequencing of cDNA following reverse transcription of small RNA. Annotation backed by mirBase and Rfam. Requires contaminants, RNA, and miRNA FASTA files, in addition to the reference genome. (Human genome is included on MiSes.) FASTQ files and stats files are available for subsequent downstream analysis.

I don't see any requirements for all the other workflows, why does this workflow need one? And where do I get that information?

[GenoMax]

I assume the quote you included is referring to doing the post-run analysis on the MiSeq itself (http://supportres.illumina.com/docum...15042320_a.pdf).

You strictly do not need to use the analysis provided on the instrument (or in BaseSpace). If you do not have physical access to MiSeq your sequence provider will have to actually run this analysis workflow for you.

[Neiltje]

I assume the quote you included is referring to doing the post-run analysis on the MiSeq itself (http://supportres.illumina.com/docum...15042320_a.pdf).

You strictly do not need to use the analysis provided on the instrument (or in BaseSpace). If you do not have physical access to MiSeq your sequence provider will have to actually run this analysis workflow for you.

We decided not to use this because we have a bioinformatics team. Thanks for your answer!