Alireza Khodadadi-Jamayran

icon indicating a website link https://scholar.google.com/scholar?q=author:%22Khodadadi-Jamayran%20A%22

icon location Applied Bioinformatics Labs, Langone Medical Center, New York University, NY. icon location Assistant Director, Applied Bioinformatics Labs, New York University School of Medicine

Results 7 comments of Alireza Khodadadi-Jamayran

Transform my seurat object into iCellR

Yes, read this issue: https://github.com/rezakj/iCellR/issues/19

Transform my seurat object into iCellR

You can, but the only thing is that iCellR identifies the conditions in the barcode/cell id (column names in the main.data slot and row names in the tSNE data). A...

Transform my seurat object into iCellR

Almost all the plots in iCellR are ggplot2. So just make the plot object like this: `My.plot

How to normalize data with single condition?

2 ways to do this; if you don't want to filter cells: ` [email protected]

Method for gene-gene correlations

Hi Yale, Thank you, yes! It's the general r "cor.test" function that by default takes "pearson". Thanks for reminding me, I will add the option to change methods in the...

Transform my iCellR object into seurat？

It would be the reverse way of converting from Seurat to iCellR. Read this thread: https://github.com/rezakj/iCellR/issues/19

'replacement has 1 row, data has 0' when creating iCellR object

Hi guys, I am a bit busy but soon will look into this. But for now, I think it's important to know that the vdj analysis is mostly about plotting...