Error converted from warning
Echoloria opened this issue · 1 comments
Hi,
thanks for developing such a powerful tool.
When I run these code:
sc = setContaminationFraction(sc, 0.2)
out = adjustCounts(sc)
I got an error:
Error in sparseMatrix(i = out@i[w] + 1, j = out@j[w] + 1, x = out@x[w], :
(converted from warning) 'giveCsparse' is deprecated; setting repr="T" for you
The packages I used are as below: Seurat(v4.4.0), Soupx(v1.6.2)
I searched this error in the "issues" part, but I didn't find the same error that anyone who have met.
So, is there anything wrong with the version of packages I'm using?
the same question I met, this question may raised because SoupX generated an non-integer matrix where the original counts have been corrected for background expression, see https://rawcdn.githack.com/constantAmateur/SoupX/204b602418df12e9fdb4b68775a8b486c6504fe4/inst/doc/pbmcTutorial.html