Question: SC3 tutorial error
1
gravatar for Jenn
3.1 years 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 • 684 views
ADD COMMENTlink modified 3.1 years ago by Vladimir Kiselev150 • written 3.1 years ago by Jenn20
Answer: SC3 tutorial error
1
gravatar for Vladimir Kiselev
3.1 years ago by
Sanger Institute, Cambridge, UK
Vladimir Kiselev150 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 3.1 years ago by Vladimir Kiselev150
1

It's working now. Thank you!

ADD REPLYlink written 3.1 years ago by Jenn20
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