Different gene scores of Different TileMat Size?

[AritaZ-hang]

Hello maintainers of ArchR, I use addGeneScoreMatrixthis function at the very beginning of creating arrow files, and I wonder whether the change of tile size(TileMatParams, actually) in createArrowFileswill affect the distribution of gene score matrix. I've read the manual and it seems that addGeneScoreMatrix uses another tile size parameter independent from that inaddTileMatrix. However in our data, a certain group of genes has different ranges of gene scores in two set of tile sizes(TileMatParams), not imputed, so I think it's not because of iterative LSI.

Relevant codes are below. Thanks for your help in advance.

ArrowFiles = createArrowFiles(inputFiles = file.list, 
                             TileMatParams = list(tileSize = 500), # another is 50, for our data is a from a small genome species,
                             GeneScoreMatParams = list（tileSize = 2000), addTileMat = TRUE, addGeneScoreMat = TRUE)

[rcorces]

I dont see how this would be the case - TileMatParams shouldnt affect anything with the GeneScoreMatrix as far as I can tell. Make sure you have set a seed in your analysis as there may be some randomized operations that you arent accounting for.