Thank you so much for the detailed vignettes and papers for using CoGAPS. We are really finding it beneficial to our research. We are running CoGAPS using the Seurat Wrapper and find that we are getting this warning message:
3: In checkInputs(data, uncertainty, allParams) :
running distributed cogaps without mtx/tsv/csv/gct data
Good afternoon,
Thank you so much for the detailed vignettes and papers for using CoGAPS. We are really finding it beneficial to our research. We are running CoGAPS using the Seurat Wrapper and find that we are getting this warning message:
after running:
results <- RunCoGAPS(object, nPatterns = 25, nIterations = 100000, outputFrequency = 5000, sparseOptimization = TRUE, nThreads = 4, distributed = "genome-wide", singleCell = TRUE, seed = 891)if we change the above code to add
temp.file=TRUEintoRunCoGAPS()the message goes away. Upon searching, I found this is part ofcheckInputsDoes this warning message affect the output of the function? What is the purpose of the temp.file?
Thank you for your time and consideration!