When downloading Recount2 tx-dataset (either via the R package or via their website) such as this dataset I get a RangedSummarizedExperiment which contain 4 assays:

assays(rse_tx)

"fragments"

"ses"

"scores"

"df"

Fragments are self-explanatory (counts from paired end data) - but what are the other 3 "assays".

Hi there, "ses" is the standard errors of the fragments estimates, "scores" is score between 0 and 1 that dictates how uniquely identifiable each transcript is under the model we fit (0 being perfectly redundant, and 1 being perfectly unique). "df" is the degrees of freedom that particular transcript has in the linear model. Thanks!

Hi there,
* "ses" is the standard errors of the fragments estimates,
* "scores" is score between 0 and 1 that dictates how uniquely identifiable each transcript is under the model we fit (0 being perfectly redundant, and 1 being perfectly unique)
* "df" is the degrees of freedom that particular transcript has in the linear model.
Thanks!

Hi there, "ses" is the standard errors of the fragments estimates, "scores" is score between 0 and 1 that dictates how uniquely identifiable each transcript is under the model we fit (0 being perfectly redundant, and 1 being perfectly unique). "df" is the degrees of freedom that particular transcript has in the linear model. Thanks!

Thanks! You should have added that as an answer so I could mak it as solved :-)

Yup, please do so Jack! ^^ This info gets reflected at the top of the package page http://bioconductor.org/packages/release/bioc/html/recount.html

Thanks!