Compatibility between Seurat, matrix and scDblFinder versions

[hennion]

We're trying to use scDblFinder in a environment with Seurat 5.0.1. It requires matrix > 1.6-2 which seems to be incompatible with scDblFinder. Is it possible to upgrade scDblFinder to make it compatible with recent versions of matrix and Seurat?

Thank you very much.

[plger]

Hi,
There is no incompatibility per say, the problem is strictly with the pre-built binaries of Matrix and some packages on which scDblFinder depends -- see e.g. this comment and link in it.
The solution, using the package versions or your liking, is simply to build those underlying packages locally, rather than using the pre-built binaries. You should be able to do this simply by specifying the type="source" argument when installing.
I think this is only the irlba package but I'm not entirely sure, please let me know.

[Tripfantasy]

I think this is only the irlba package but I'm not entirely sure, please let me know.

In my case it was only the irlba package. This solution works great, thank you!

[bestbakerpro]

@plger
I also met this problem，and I rebuilt irlba package. Now scDblFinder has worked great.
install.packages("irlba",type = "source")
Thank you！

[hennion]

It finally worked restarting from a clean environment and installing irlba from source.
Thank you all for your help!