Ryan Corces comments

Results 113 comments of


                                            Ryan Corces

addReproduciblePeakSet error

Presumably something related to your custom genome. I would manually look through each of the `-reproduciblePeaks.gr.rds` files mentioned in your console output (should be 24 of them) to see if...

addReproduciblePeakSet error

This is a slightly different error than previously. I cant be sure but this looks like a problem with your genome annotation to me. We dont work with custom genomes...

addReproduciblePeakSet error

closing due to inactivity. if you need further assistance on this issue, please post again here.

Mitochondrial genes removed at import10xFeatureMatrix

Better late than never. We've done a big overhaul to the multiomic import functions and now make it possible to retain chrM genes. This is currently available on `dev` and...

Monocle3 output directory not being created - Error in pdf(path, width = 6, height = 6, useDingbats = FALSE) :

This was fixed via https://github.com/GreenleafLab/ArchR/commit/44a0d27840d4e11a6ee04bd9f26f01761b1ff017 on `dev` and will be incorporated into the next release.

Add CCA batch correction method

@jblich870 - thanks for considering making updates to enable CCA batch correction. My one comment right now is that you should make sure to fork from the `dev` branch and...

Seurat FindClusters() Error when running addDoubletScores() and addIterativeLSI() ----> no slot of name "i" for this object of class "Graph"

Hi @solvi808! Thanks for using ArchR! Please make sure that your post belongs in the Issues section. Only bugs and error reports belong in the Issues section. Usage questions and...

Seurat FindClusters() Error when running addDoubletScores() and addIterativeLSI() ----> no slot of name "i" for this object of class "Graph"

This error is coming from Seurat's `FindClusters()` function. I couldnt really say what is causing it. Maybe you could provide the ouptut of `traceback()` after getting the error?

Seurat FindClusters() Error when running addDoubletScores() and addIterativeLSI() ----> no slot of name "i" for this object of class "Graph"

Sorry - I'm not really sure on this one. If you can make a reproducible example, I might be able to help.

error of addGeneIntegrationMatrix : <simpleError in dimnames(x) <- dn: length of 'dimnames' [1] not equal to array extent>

Hi @XiaoKaixuan12333! Thanks for using ArchR! Please make sure that your post belongs in the Issues section. Only bugs and error reports belong in the Issues section. Usage questions and...