Which RcisTarget databases to use in SCENIC

Question

[jomagrax]

Im learning how to analyce single-cell data with SCENIC, following It's tutorial (http://htmlpreview.github.io/?https://github.com/aertslab/SCENIC/blob/master/inst/doc/SCENIC_Running.html).

They ask me te choose a RcisTarget database for Mouse, but even though I have found the database (https://resources.aertslab.org/cistarget/) I have no clue wich file to download depending on the reference genome used.

Answer 1

[junyazh]

if you are running the R version SCENIC, the database must be the following two, as of today: mc_v10/mm9-500bp-upstream-7species.mc9nr.feather , mm9-tss-centered-10kb-7species.mc9nr.feather