search for: assa

...er analysis. For that i need to allocate each vector in the filePatterns a unique name, which I just can't do. I'm not so great in R loops and the help over the net regards for loops in R is quite rare. I'm really thankful for every help. Mit freundlichen Grüßen / Best Regards Assa Yeroslaviz "Richard Pugh" <rpugh@mango-solutions.com> 09.10.2008 14:06 An <assa.yeroslaviz@bayercropscience.com> Kopie Thema FW: [R] R loops Hi Assa, I happened to have some code on my screen that does exactly what you want: myDir <- "D:\\Temp" all...

...file(file, "r", encoding = encoding) : unable to open connection In addition: Warning message: cannot open file 'http:/bioconductor.org/getBioC.R' Is there a possibility to change the proxy setting after the programm is already running or do i need to do it before? THX Assa -- Assa Yeroslaviz Loetzenerstr. 15 51373 Leverkusen

...ository/Courses TRUE TRUE TRUE FALSE every time i start R it shows me only the first two lines as default instead of all of them. Is there a possibility to change it in the Rprofile.site or in the repositories files, so R will always use the complete list as a default? Thx for any help. Assa -- Assa Yeroslaviz Loetzener Str. 15 51373 Leverkusen [[alternative HTML version deleted]]

...data$protein_ids) gsub(";", "\\",\"", data$protein_ids) gsub(";", "\",\"", data$protein_ids) gsub(";", "\\',\\'", data$protein_ids) gsub(";", '"',data$protein_ids) What do I miss? Thanks Assa [[alternative HTML version deleted]]

...other column with ascending numbers (column header should be "order", and than 1,2,3,4 ....the end of the matrix). During my analysis I reorder them ( due to merge commands by a different column). How do I add such a column in an ascending order (or descending for what it matters)? THX Assa [[alternative HTML version deleted]]

...ller than the end position (if it lies between the start and end positions in the localization table) 2.a if no - go to the next gene 2.b if yes - give it to me. I was having difficulties doing it without running into three interleaved conditional loops (if). I would appreciate any help. Thanks Assa [[alternative HTML version deleted]]

...2787 gen2 GO:0016070 gen2 : gen3 : gen4 GO:0007409 gen1 : gen3 GO:0006511 gen2 : gen4 GO:0006417 gen3 I've tried it with the package doBy (lapplyBy and paste) but it just doesn't work out. I will be very happy for any suggestions you might have to help me. Thanks Assa [[alternative HTML version deleted]]

...o extract the line from the arrays using subset. genSet1 <-sample(x,50) random1 <- genes %in% genSet1 subsetGenelist <- subset(genelist, random1) is there a different way of creating these random vectors or saving the loop results outside tjhe loop so I cn work with them? Thanks a lot Assa [[alternative HTML version deleted]]

...would like to know if there is a way of using both preprocess commands without the need to rename ours. They both use different object structure as an input and as far I understand the adventages of OOP in R it should be able to recognize this differences, but how? Thans in advance for your help Assa [[alternative HTML version deleted]]

...? I have two data frames which i would like to combine. While doing so I always loose the row names. When I try to append this, I get the error message, that I have non-unique names. This although I used unique command on the data frame where the double inputs supposedly are thanks for the help Assa [[alternative HTML version deleted]]

...t it takes ages to finish: for( i in 1:length(combined[,15])){ combined[i,19]<- paste(combined[i,19], combined[i,20], sep = " ") } Does anyone has a better idea? I tried to do it with the apply function, but I'm getting an error message that paste(...) is not a function. THX Assa [[alternative HTML version deleted]]

...39; My question is is there a way around it? I don't want to publish this package. It's just a compendium of various functions I often use, so i wrote them as a package. How can I install this package under R-2.11.0 without so much trouble as changing ALL of my RD files? THX for the help Assa > R.version platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 2 minor 11.0 year 2010 month 04 day 22 svn rev 51801 language R version.string R version 2.11.0 (2010-04-2...

...t, than copy (add) the annotations (all or some) into the matrix list of the first list. Unfortunately I don't have a clue as how to start doing it. I tried to read both lists into a matrix with read.table(). but I don't know how to continue. I would be happy for any help I can get. THX Assa -------------- next part -------------- Probe Id p-Value log(fold_change) fold_change Hyb1_Signal Hyb2_Signal Hyb3_Signal Hyb4_Signal Hyb5_Signal Hyb6_Signal Hyb7_Signal Hyb8_Signal A_51_P125745 8.7834E-10 0.699225329 1.623632732 9.564188501 9.608302973 9.259850079 9.343987249 15.25372018 15.330481...

...1 [3,] 0 0 [4,] 0 1 5. But why? How do I suppose to know it? Is it also a multiplication of some matrices? 6. What stands the columns or the lines for? I'll be happy for every kind of help I can get. If someone know where I can read about it, it would be also of great need. THX, Assa -- Assa Yeroslaviz Loetzener Str. 15 51373 Leverkusen [[alternative HTML version deleted]]

...object of type 'builtin' is not subsettable I would like the loop to make in each round a list of the files with the pattern in the directory I'm looking in. what am i doing wrong? If I doing it for each element I'm getting the correct list. THX for the help Best Regards Assa Yeroslaviz [[alternative HTML version deleted]]

...reating the different coefficients. How do I choose which coefficient to build? I would be happy for any help. I didn't find much information about the limma package and the affymetrix (single-channel) chips. If you can help me looking for general information I'll be also grateful. THX, Assa -- Assa Yeroslaviz Loetzener Str. 15 51373 Leverkusen [[alternative HTML version deleted]]

...otpink4"), col.areas = FALSE, col.symbols =unclass(stress.Factor) ,zoom=c(1,5),col.size=2) Unfortunately it's not working. What i get is to see in the attachment. i have two symbols but for the wrong experiments. I would happy for any suggestions which help me solve this problem. Thanks Assa -- Assa Yeroslaviz Kockelsberg 22 51371 Leverkusen

...y R. I'm using the function choose.files in Windows. I have some files I always use and i would like to filter my option to these kind of files. I have some "atr", "cdt", "gct", "gmt" etc. Is there a way of telling R to filter only these files? Thanks Assa [[alternative HTML version deleted]]

...s not a filter to extract genes with a fold induction value lower than 2? I would like to know how do I extract a subset of matrix from inside a list? my siggenes.table is a list with two matrices inside. I would like to filter these matrices for genes with a 2fold up- and down-regulation. Thanks Assa > sessionInfo() R version 2.12.0 (2010-10-15) Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] samr_1.28...

...prediction function. But I don't know how to assign the right predictions to these labels. BTW, Is there a way of finding the optimum in the curve? I mean to find the exact value in the ROC curve (see sheet 2 in the excel file for the ROC curve). I would like to thank for any help in advance Assa