How do I extract phenotype information from a series matrix file? Thank you.

Dear Paul,

that's a bit too concise.  I'm not really sure what you mean by "series matrix file"...

If this is about a GEO series, use GEOquery::getGEO() to download it as an ExpressionSet,

then use exprs(), pData(), fData(), etc. from the Biobase package to access the contents.

?pData

Hope this helps,

 - axel