yinlisssss

Hi， @MenghuaZhang86 , I also have problems as to how to prepare the input matrix for TooManyCells after using Harmony to remove the batch effect. Have you figured out a...

same issue ``` queryClin

   

the mae object is bigger than 10mb, how can i upload? thanks

OK, uploading to dropbox... the internet sucks, sorry for your time

https://www.dropbox.com/s/zy1bk5r031zhvkp/ELMER.zip?dl=0

I tried to install the latest version, however ERROR: dependencies 'TCGAbiolinksGUI.data', 'IlluminaHumanMethylation450kanno.ilmn12.hg19', 'IlluminaHumanMethylation450kmanifest', 'IlluminaHumanMethylation27kmanifest', 'IlluminaHumanMethylation27kanno.ilmn12.hg19', 'IlluminaHumanMethylationEPICanno.ilm10b2.hg19', 'IlluminaHumanMethylationEPICmanifest' are not available for package 'TCGAbiolinksGUI' * removing 'C:/Users/asus/Documents/R/win-library/3.4/TCGAbiolinksGUI' In R CMD INSTALL...

  Then i manually downloaded last version ZIP from bioconductor . now it works. but when it comes to ELMER analysis, it's like this..

Downloading GitHub repo BioinformaticsFMRP/TCGAbiolinksGUI@master from URL https://api.github.com/repos/BioinformaticsFMRP/TCGAbiolinksGUI/zipball/master Installing TCGAbiolinksGUI "C:/PROGRA~1/R/R-34~1.4/bin/x64/R" --no-site-file --no-environ --no-save \ --no-restore --quiet CMD INSTALL \ "C:/Users/asus/AppData/Local/Temp/Rtmpa2S620/devtools29d4363439a0/BioinformaticsFMRP-TCGAbiolinksGUI-ec762c5" \ --library="C:/Users/asus/Documents/R/win-library/3.4" --install-tests * installing *source* package 'TCGAbiolinksGUI' ... **...

i set the max number of DLL to 1000. it still exceeds.,,,, i wanna cry..