software of duplicates in RNA-seq data

Question

[yueli7]

Hello,

I have already used star to mapping all the reads to the human genome.

Which software has the best perform in detecting duplicates in RNA-seq data?

Picard's MarkDuplicates, samtools' rmdup, dupradar or anything else?

Thanks in advance!

Answer 1

[igor]

You can check this previous discussion: Samtools rmdup and Piccard Markduplicates

However, you may not want to remove duplicates: How detrimental are duplicate reads in RNAseq experiments?