SC3 tutorial error
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Jenn ▴ 30
@jenn-11033
Last seen 19 months ago

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 • 882 views
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@vladimir-kiselev-9342
Last seen 2.7 years ago
Sanger Institute, Cambridge, UK

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

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It's working now. Thank you!

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