[BioC] QuasR question

[Michael Stadler]

Dear Dani,

I hope you don't mind me cc'ing the bioconductor list. The question may
be of interest to others.

The answer to your questions is described in the vignette (section 5.1
"Create a sample file"). Essentially, you just list the pre-existing bam
files instead of the sequence files. QuasR will then use these instead
of creating new bam files.

Let me know if that is not clear.

Best,
Michael

On 01.09.2014 09:49, Daniel Soronellas wrote:
> Dear Dr. Stadler,
> 
> I contact you because I recently found the QuasR R package, which I found to be very interesting and I would like to apply in my downstream analysis for different experiments (mainly ChIP-seq).
> I have BAM files which are already mapped by a custom pipeline, and I wanted to use QuasR from this starting point. I searched on the documentation how I can load already mapped files but didn't find the answer, is it possible for you to write a few lines of code as an example of BAM file loading to the QuasR package?
> 
> Thank you very much for your time and attention,
> I would really appreciate any help you can give
> 
> Sincerelly,
> Dani Soronellas
> Chromatin & Gene Expression Lab
> Ph: 933160115 / Ext: 1115
> @: daniel.soronellas at crg.eu
> Center for Genomic Regulation, PRBB
> Av. Doctor Aiguader, 88
> 08003, Barcelona (Spain)
>