Mapping sRNAs using Bowtie - Raw abundance vs norm abundance

[atulkakrana]

Hello All,

I have to map sRNAs to cDNA using Bowtie2. I have been told that abundance information is crucial for kind of analysis I am doing.

The sRNA input I have is in form of tag count file so I am thinking of copying every 'tag' the number of times 'tag count' value to generate a new file and use it as an input for Bowtie. Is that a correct way to use tag count file? or should I use normalized 'tag count' values?

I have multiple sRNA libraries which I want to combine and use as one for mapping to cDNA. Can I combine all the libraries to one?

Thanks

AK