venkan

No rownames for peakmatrix from the ArchR project

2

I have the ArchR project load into `proj` ``` getAvailableMatrices(proj) [1] "GeneScoreMatrix" "PeakMatrix" "TileMatrix" ``` To get the peak matrix I used: `peak_matrix peak_matrix class: RangedSummarizedExperiment dim: 187739 15031 metadata(0):...

I'm using `SCpubr::do_FeaturePlot` with different arguments like `split.by`, `diverging.palette` etc... ``` SCpubr::do_FeaturePlot(scdata, features = c("signature"), reduction = "umap", split.by = "condition", ncol=4, order = TRUE, legend.title = "myCAF_Custom Signature", font.size...

Error in checkForRemoteErrors(val) : one node produced an error: subscript out of bounds

7

I'm bulk RNA-seq data and sc-RNA data with Ensembl Ids. And using cell type Fibroblasts. ``` > dim(bk.dat) [1] 546 19988 > dim(sc.dat) [1] 1159 19828 > sort(table(cell.type.labels)) Fibroblast 1159...

I'm trying to use `CreatePairedObject` using both RNA and ATAC assays, and I have an Error like the following: What could be the issue here?