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doubt about samr siggenes.table$genes.up

3 messages · Leonardo K, Peter Ehlers, Shi, Tao

Original
Leonardo K
# 
Hi, here's my siggenes.table$genes.up snippet.

Two class unpaired SAMR analysis.

"Row" "Gene ID" "Gene Name" "Score(d)" "Numerator(r)" "Denominator(s+s0)"
"Fold Change" "q-value(%)"
"1" "25" "RPL15P22" "RPL15P22" "-1.44115338424578" "-18" "12.4899959967968"
"1.27368448239355" "0"
"2" "47" "CHAF1A" "CHAF1A" "-1.44115338424578" "-18" "12.4899959967968"
"1.30356683838951" "0"
"3" "48" "PARP2" "PARP2" "-1.44115338424578" "-18" "12.4899959967968"
"1.09780831177589" "0"
"4" "52" "HMGXB4" "HMGXB4" "-1.44115338424578" "-18" "12.4899959967968"
"1.22596090318945" "0"

Why do I get one column more in the data block (9) than the header (8)?

Looks like the second column (25,47,48,etc) does not make sense.

TIA

Leo
Peter Ehlers
#
On 2010-05-25 10:54, Leonardo K wrote:
Presumably you are getting this from an application of write.table?
If so, use the argument 'row.names = FALSE' to remove the *first*
column. See the first sentence in the 'CSV files' section of
?write.table.

Your second column is part of the data you're saving (probably
rownames from a larger dataframe or matrix).

  -Peter Ehlers
Shi, Tao
# 
Leo,

This question is more suited for the BioC help list.  Please post your question over there.

Also, offer more info about how you arrived this siggenes.table, what version of R and siggenes package you're using would be helpful.  Please read the posting guide!

...Tao



----- Original Message ----
Presumably you are getting this from an application of
If so, use the argument 'row.names = FALSE' to remove the
column. See the first sentence in the 'CSV files' section
?write.table.

Your second column is part of the data you're saving
rownames from a larger dataframe or matrix).

  -Peter
______________________________________________
PLEASE do read the posting
and provide commented,