[BioC] Replace method, AffyBatch, pm or mm

[Laurent Buffat]

Hi everyone,

In an affybatch, I can extract from an affybatch “exp.norm” and a given
probesetname, psm, the pm value for a list of condition :

> pm(exp.norm,psn)[,1:3]    

                    1          2          3

1007_s_at1  501.35097 430.517639 495.100973

1007_s_at2  120.76764 131.600973 142.100973

1007_s_at3  293.51764 290.017639 268.350973

1007_s_at4  517.43431 568.184306 635.184306

…. Etc…

 

Now, I would like to replace these values by an over one like for example :

 > pm(exp.norm,psn)[,1:3] <- pm(exp.norm,psn)[,1:3] + 1000

or

*       pm(ex.norm,psn)[,1:3] <- NA

But, I have these error :

> pm(exp.norm,psn)[,1:3] <- pm(exp.norm,psn)[,1:3]

Error in "pm<-"(`*tmp*`, psn, value = pm(exp.norm, psn)[, 1:3]) :

        unused argument(s) ( ...)

In addition: Warning messages:

1: 'multiget' is deprecated.

Use 'mget' instead.

See help("Deprecated") and help("base-deprecated").

2: 'multiget' is deprecated.

Use 'mget' instead.

See help("Deprecated") and help("base-deprecated").

 

Thanks for your help.

 

Laurent Buffat

 

 

 

 

 

 

 

 

 


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