Error in deconvolution using CIBERSORTx

Question

[yadavsoumya647]

I am currently using CIBERSORTx for the deconvolution of cell types. I made a mixture file of samples (TPM counts) using R that looks like this -

But whenever I try to use this mixture file against any signature matrix it give me this error -

Error in file(file, "rt") : cannot open the connection
Calls: CIBERSORTxFractions -> read.table -> file
In addition: Warning message:
In file(file, "rt") :
  cannot open file 'files/[e-mail]/NP': No such file or directory
Execution halted.

Can anyone help me resolve this? Thankyou.

Answer 1

[Aspire]

When something similar happened to me, re-uploading the file worked. Also double-check that the name of the file is written in a way that is suitable for computers (no spaces, and it should probably have the ".txt" extension)

[yadavsoumya647]

Hi! Thanks for replying. I tried doing all of that multiple times but its still not working.

[yadavsoumya647]

hi, i checked and formatted the file name again and uploaded it and it worked! Thankyou for your help!!