sknaack

Do I understand correctly this is still an issue in .wdl? I'm trying to pass an input path to a directory in my .wdl code from which to generate an...

I understand the concern about local/ batch running and not hardcode-ing paths, but I only mean to run glob on a directory based on a variable from an input .json...

Hi Marcel, Thanks much for the quick reply. Indeed what you describe makes perfect sense for snRNA-seq. For sc/snATAC-seq data the sequenced barcode is exclusively in the I1 data file...

Hi Marcel, That's very kind. Indeed I can do so readily to illustrate. I should first say I slightly misspoke/mistyped. Technically the three files are labeled R1, R2 and R3,...

Hi Marcel, A quick follow up, I hope the example .fastq lines above were helpful. I understand if it's not 100% doable off hand, but I'll nevertheless be intrigued if...

Hi All, After updating to Seurat v5 a few weeks ago I am experiencing the issue described here when running Seurat functions within RStudio on an M2 Ultra processor machine...

In case it's helpful to note for anyone: I've had much better luck running Seurat v5 processes outside of Rstudio, i.e., from command line scripts given as arguments to Rscript...