Search
Question: SC3 tutorial error
1
gravatar for Jenn
13 months ago by
Jenn20
Jenn20 wrote:

I tried to run the SC3 tutorial in section 3.1 and 3.2 (http://bioconductor.org/packages/release/bioc/vignettes/SC3/inst/doc/my-vignette.html) but I kept getting this error with this line

treutlein_sceset <- sc3(treutlein_sceset, ks = 2:4)

Setting SC3 parameters...
Error in object@sc3$exprs_values <- exprs_values : 
  no slot of name "sc3" for this object of class "SCESet"

If I tried this instead as shown in section 6,

 treutlein_sceset@sc3 <- list()
Error in (function (cl, name, valueClass)  : 
  ‘sc3’ is not a slot in class “SCESet”

Can anyone please advise?

Thank you,

Jenn

sc3
ADD COMMENTlink modified 13 months ago by Vladimir Kiselev130 • written 13 months ago by Jenn20
1
gravatar for Vladimir Kiselev
13 months ago by
Sanger Institute, Cambridge, UK
Vladimir Kiselev130 wrote:

Hi Jenn,

Looks like you need to update the 'scater' package. Could you please check whether your 'scater' version is higher than 1.1.14? You can check it by looking at the output of sessionInfo().

Cheers,

Vladimir

ADD COMMENTlink written 13 months ago by Vladimir Kiselev130
1

It's working now. Thank you!

ADD REPLYlink written 13 months ago by Jenn20
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 316 users visited in the last hour