capturing phenotypic information in R

Question

[12021560-002]

hi! I am following your link http://bioinformatics.knowledgeblog.org/2011/06/20/analysing-microarray-data-in-bioconductor/ I need to download phenotypic data in the form of text file that describe chip names, and the source of the biological samples as well as probe that hybridised to them. for that purpose i am using command.

$ ls data/*.CEL > data/phenodata.txt

this returns an error

$ ls data/*.CEL > data/phenodata.txt Error: unexpected '$' in "$"

what should I do now?

Answer 1

[andrew.j.skelton73]

Read the actual tutorial instead of blindly executing code. Remember, just because something ran, doesn't mean it's done what you expected.

To load the data into R using simpleaffy we need to create a file to represent this information. Open a new terminal window and type:

You need to execute this bit in the command line.