siggenes2excel {siggenes} | R Documentation |
Generates a csv file for either a SAM or an EBAM object for the use in Excel. This csv file can contain general information as the number of differentially expressed genes and the estimated FDR, and gene-specific information on the differentially expressed genes.
sam2excel(object, delta, file, excel.version=1, n.digits = 3, what = "both", ll = FALSE, chip = "", quote = FALSE) ebam2excel(object, delta, file, excel.version=1, n.digits = 4, what = "both", ll = FALSE, chip = "", quote = FALSE)
object |
either a SAM or an EBAM object |
delta |
a numerical value specifying the Delta value |
file |
character string naming the file in which the output should be stored. Must have the suffix ".csv" |
excel.version |
either 1 or 2 . If excel.version=1 (default) a csv file
for the use in an Excel version with American standard settings (sep="," and
dec="." ) will be generated. If excel.version=2 a csv file for the European
standard setting (sep=";" and dec="," ) will be generated |
n.digits |
integer specifying the number of decimal places used in the output |
what |
either "both" , "stats" or "genes" . If "stats" general
information will be shown. If "genes" gene-specific information will be given.
If "both" both general and gene-specific information will be shown |
ll |
logical indicating if both the locus links and the symbols of the genes will be added to the output |
chip |
character string naming the chip type used in this analysis. Must
be specified as in the meta-data section of Bioconductor (e.g., "hgu133a"
for the Affymetrix HG-U133A chip). Only needed if ll=TRUE .
If the argument data in sam(data, cl, ...) has been specified
by an ExpressionSet object chip need not to be specified |
quote |
logical indicating if character strings and factors should be surrounded by
double quotes. For details see write.table |
Holger Schwender, holger.schw@gmx.de
sam
, sam2html
, ebam
, ebam2html