Dear all,
I am wondering how much the quality of the reference genome assembly influences RNA-seq read mapping (for example Illumina reads mapped to the genome with Tophat). I could not find any published study addressing this question.
Do you know any paper where RNA-seq mapping rates and quality are compared between model species genomes, draft genomes and de novo assembled genomes?
Thanks!
Julien
I am wondering how much the quality of the reference genome assembly influences RNA-seq read mapping (for example Illumina reads mapped to the genome with Tophat). I could not find any published study addressing this question.
Do you know any paper where RNA-seq mapping rates and quality are compared between model species genomes, draft genomes and de novo assembled genomes?
Thanks!
Julien