Dear Bioconductor-Team,

I am currently using the R-package cellHTS to analyse RNAi screening data. As I have not worked with R before, I modify the vignette "analysis of multi-channel cell-based screens" according to my experiment. After defining my controls I perform the writeReport command and get the follwing error:

 

> out <- writeReport(cellHTSlist = list(raw = x), outdir = "raw-pgl4-",posControls = posControls, negControls = negControls)

cellHTS2 is busy creating HTML pages for 'AP2betapGl4'. 

Found raw data.

State:

configured=TRUE, annotated=FALSE

0% done (step 1 of 6)

17% done (step 2 of 6)

24% done (step 3 of 6)Fehler in b[i:(da[1] + i - 1), j:(da[2] + j - 1)] = a : 

  Indizierung außerhalb der Grenzen

Zusätzlich: Warning message:

The 'cellHTSlist' argument is deprecated.

Please provide all necessary cellHTS objects separately via the 'raw', 'normalized' and 'scored' arguments`

 

 

As I cannot identify the source of the error, I am not sure what it means or which files / commands I will have to change.

Do you have any experience with this or could you explain this error to a novel Biocondutor user?

Thanks a lot,

Regina

_____________________________



Regina Hecker

Ph.D. Student

University Children's Hospital Zürich
Division of Oncology 
August Forel Str.1 
8008 Zürich



Tel.  +41 44 634 8801 
Fax. +41 44 634 8859



e-mail: Regina.Hecker@kispi.uzh.ch <mailto:Regina.Hecker@kispi.uzh.ch> 





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