Hi Pyne, Nishant, I think the R wrapper should coerce the input to numeric. Integer values aren't that uncommon in flow data, although in a flowFrame they will always be stored as floating points. To most R users the notion of data types is not that relevant (after all, R automatically coerces in most cases), and this seems to be one of the places where a slightly more intelligent software doesn't hurt. Florian Quoting Nishant Gopalakrishnan <ngopalak at="" fhcrc.org="">: > Hi Pyne > > Its giving you an error because, the C function implementing the logicle > transform is doing some type checking to see if the data supplied to it > is a real number. > for example , > ltr=logicleTransform("logicle") > ltr(c(1:10)) ## would give you an error as class(c(1:10)) is "integer" > > ltr(as.real(c(1:10))) ## would work as the input is a real number > > Nishant > > Saumyadipta Pyne wrote: >> Hi, >> >> I am doing some simulations on flow experiments, and therefore the >> data are just a plain numerical matrix of fake scatter and marker >> readouts. Thus, the data are not read with read.FCS nor saved as >> a flowFrame. Instead I save the matrix as a data frame (call it Ab). >> >> The data, generated by me, have all entries present and containing >> integral (real) values. When I try to apply the logicle transformation >> to the data, it shows the following error: >> >> > ltr=logicleTransform("logicle") >> > transform(Ab, "logicle.Ab1"=ltr(Ab1)) >> > Error in ltr(Ab1) : Input must be real values. >> >> However I do not get any error with, say, truncateTransform. >> Is there a domain of real values for which logicle is not defined? >> Please let me know what I might be doing wrong above. >> >> Thanks. >> -Pyne >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor >