Kallisto out put be analyzed using Limma-Voom

Question

[dr.fatemeh.askari]

Dear All,

Can the estimated counts of Kallisto out put be analyzed using Limma-Voom.

Answer 1

[ATpoint]

Sure but since kallisto produces transcript level abundance estimates and limma-voom was designed for gene level DE analysis you need to aggregate the transcript level estimates to the gene level, see https://bioconductor.org/packages/release/bioc/vignettes/tximport/inst/doc/tximport.html#kallisto