Open KeshavB02 opened 5 years ago
I didn't really maintain versions in a way you can roll back. Sorry. I am not sure now why you have this difference. Not sure what you are using this for, but anyhow, you can just extract the labels/scores from your old object. Why do you need to rerun it with the old version?
In earlier version, I was getting same cells from both Seurat(2.3.4) & SingleR(0.2.1). So I made full pipeline (for research purpose) according that. Now It is giving error, because of one cell difference. That's why, I want to know, if older version of Singler will work for my data or not.
Hi SingleR Team, Can you help in these two problems ? -
-> I want to install SingleR package's 0.2.1 version, becasue for an old project I used 0.2.1 version. I couldn't find any option on the site to install older versions of SingleR. Could you please provide command for that ?
-> Regarding number of cells for 10X data, Using Seurat(2.3.4) I am getting one more cell than SingleR(0.2.2) object, so i am not able to map both the data properly. I have used same parameter for minimum number of genes. Can you please help me in this ? For your reference I am writing the commands for both the packages -
Seurat (a) pbmc = CreateSeuratObject(raw.data = pbmc.data, min.cells = 3, project = "Sample") (b) pbmc <- FilterCells(object = pbmc, subset.names = "nGene", low.thresholds = 500, high.thresholds = 7500)
I have tried 500,501 option for genes in singler & seurat earlier. I think, Seurat package usage <500 & SingleR <=499. So I have written code like that.
Thank-you