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alexyermanos / Platypus

R package for the analysis of single-cell immune repertoires
GNU General Public License v3.0
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dummy VDJ #33

Closed ChrisOmics closed 1 year ago

ChrisOmics commented 1 year ago

Hello, I am loving your tool thanks so much for developing. I do have a question. I have three samples. s1 s2 and s3 have GEX data, and s1 and s2 have VDJ. Is there a way to make a dummy VDJ so I can load them into a VDJ_GEX_matrix?

vickreiner commented 1 year ago

Hi Chris,

you can just ommit the VDJ.input.directory.list argument and run the function without VDJ: VDJ.out.directory.list <- list("/VDJ/S1/", "/VDJ/S2/") VGM <- VDJ_GEX_matrix( VDJ.out.directory.list = VDJ.out.directory.list, ... #other arguments applicable to GEX processing )

Thanks and let us know if you encounter any issues.