DoubletDecon

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Improved_Seurat_Preprocessed() in DoubletDecon gives error

1

I've a SeuratObject Leaf_frozen and I'm using this data into **DoubletDecon**'s `Improved_Seurat_Pre_Process()` as shown below- `Leaf_processed

karthikavarmar

Some samples have an error running Main_Doublet_Decon

4

Hi,all I running 40 PBMC samples，but just two samples have error in Main_Doublet_Decon, error message: WARNING: if using ICGS2 file input, please import 'rawDataFile' and 'groupsFile' as path/location instead of...

WangRong423

I tried demo code using the pbmc_small object, using the following code ` newFiles=Improved_Seurat_Pre_Process(seuratObject=pbmc_small, num_genes=50, write_files=FALSE) write.table(newFiles$newExpressionFile, paste0(filename,"exp"), sep="\t") write.table(newFiles$newGroupsFile, paste0(filename,"grp"), sep="\t", col.names = F) filename="PBMC_example" location=output_dir results=Main_Doublet_Decon(rawDataFile=paste0(filename,"exp"), groupsFile=paste0(filename,"grp"), filename=filename,...

coralzhang

Issues testing rho-prime values in shiny app

1

Hi all, I'm having trouble successfully running the test for rho-prime values in the UI (as well as running DoubletDecon in full). For some reason, it successfully runs the first...

MSommars

Hi all- I am trying to run the Main_Doublet_Decon as this: results

1cm121

Hi all- I am trying to install but got a series of dependency issues. The latest appears to be part of shiny but that installed fine. Here's the session info:...

mbartl13

Hi, I'm trying to run Improved_Seurat_Pre_Process on a Seurat object that i've used with Seurat v4. I'm getting the following error after the marker-finding step: ``` {r} NAs introduced by...

mvhunter1

Hi, I'm currently working on scRNAseq analysis using RStudio on Windows, R v4.0.5. and am seeing some clusters that appear to be made up of cells with features from other...

RobertWhitener

Problem with removeCC

2

Based upon previous exploration of the data, I suspect that some cells with high cell cycle related gene expression are being called as doublets (likely because I have 2 or...

abigailelliot26

Error in data.frame(..., check.names = FALSE) at Combining similar clusters

1

I am getting the following error when using `Main_Doublet_Decon` ``` [1] "Reading data..." [1] "Processing raw data..." [1] "Combining similar clusters..." Error in data.frame(..., check.names = FALSE) : arguments imply...

jamrute