similar to: DrDimont package in R

How can I subscribe to R genomic list? On Sun, 2 Apr 2023, 9:28 pm Peter Langfelder, <peter.langfelder at gmail.com> wrote: > It's a microarray data set, so I don't think you would want to apply > an RNA-seq pipeline. You'd be better off applying a normalization > appropriate for this type of microarray data. > > HTH, > > Peter > > On Sun, Apr 2, 2023

I want to get the count matrix of genes from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE146049. Is it possible for GSE146049? After getting counts, I want to do TMM normalization. [[alternative HTML version deleted]]

It's a microarray data set, so I don't think you would want to apply an RNA-seq pipeline. You'd be better off applying a normalization appropriate for this type of microarray data. HTH, Peter On Sun, Apr 2, 2023 at 11:09?PM Anas Jamshed <anasjamshed1994 at gmail.com> wrote: > > I want to get the count matrix of genes from >

I'm sorry but that is not a working example. A working example needs to create the plots being used. For example, stealing some code from https://rpkgs.datanovia.com/ggpubr/reference/ggarrange.html #================================================================= data <https://rdrr.io/r/utils/data.html>("ToothGrowth")df <- ToothGrowthdf$dose <- as.factor

Dear John Kane Dear R community Here my working example 1. Example that is working with legend=?top?. However, as mentioned, the legend is in the middle of the top axis. mylist<-list(p1, p2) dev.new(width=28, height=18) fig1<- ggarrange(plotlist=mylist, common.legend = TRUE, legend="top", labels = c("(A)", "(B)"), font.label = list(size = 18, color =

I am lousy at simple regex and I have not found a solution to a simple problem. I have a vector with some character values that I want to split. Sample data dd1 <- c( "XXY (mat harry)","XXY (jim bob)", "CAMP (joe blow)", "ALP (max jack)") Desired result dd2 <- data.frame( xx = c("XXY", "XXY", "CAMP",

A stupid question but does anyone know how to express the actual colours used by the main Canadian political parties? I want to do a couple of ggplot2 plots and have lines or rectangles that accurately reflect the party colours. I can probably play around with RColorBrewer or something to figure it out but if some some already has got them it would save me some time especially with the NDP

Could you supply us with a MWE (minimal working example)of what you have so far? Thanks. On Mon, 5 Feb 2024 at 05:00, SIBYLLE ST?CKLI via R-help < r-help at r-project.org> wrote: > Dear R community > > It is possible to adjust the legend in combined ggplots using ggarrange > with > be positions top, bottom, left and right. > My question: Is there a function to change the

Dear list, Is there a elegant way to name multiple ordered plot as A, B, C and D? Just put A, B, C and D on the top left corner of each plot. Usually I do it in Illustrator, but I think in R should there is a way. Could you please provide a example? Thank you very much in advance.

Folks, Sorry for butting in here. I ran the code from John Kane below and it worked fine. I did however get a deprecation message suggesting the use of ggpairs from the GGally package to make this chart. Unfortunately I haven't found the correct incantation to get the diagonal to display the density plots using the "diag" parameter. Any suggestions? Just trying to learn,

I am very new to Linux so I probably am doing something stupid but I cannot seem to update to R 2.15 Using Ubuntu 12.02 Precise Penguin I realise that debian packages are not updated regularly so I tried to follow the insructions at the R-site So far, I have modified /etc/apt/sources.list to read ## R CRAN added 2012-06-12 deb http://probability.ca/cran/bin/linux/debian squeeze-cran/ Issued

Hi Keith,, ggpairs(dat1, upper = list(continuous = "density", combo = "box")) appears to be what you want. John Kane Kingston ON Canada > -----Original Message----- > From: kw1958 at gmail.com > Sent: Tue, 11 Jun 2013 09:25:48 -0400 > To: r-help at r-project.org > Subject: Re: [R] R-help Digest, Vol 124, Issue 12 > > Folks, > > Sorry for

I could have sworn that yesterday xtable(file, booktabs = TRUE) was giving me toprule , midrule and bottomrule outout. Today : library(xtable) aa <- table( sample(letters[1:9], 100, replace = TRUE)) xtable(aa, booktabs = TRUE) gives me \begin{table}[ht] \centering \begin{tabular}{rr} \hline & V1 \\ \hline a & 15 \\ b & 11 \\ c & 13 \\ d &

Dear all, I want to get a series of boxplots (grouped by two factors) and I want to overlay the original observations and the following code does almost what I want: library(ggplot) ddf <- data.frame(x=factor(rep(LETTERS[1:4], each=30)), y = runif(120,0,10), grp = factor(rep(rep(1:3, 10), 4))) ggplot(ddf, aes(x, y, colour=grp)) + geom_boxplot() + geom_point() Yet the position of the points

I have x, y, z data. The x, y fields dont change but Z does. How do I add a very small number onto the end of each x, y data point. For example: Original (X) Original (Y) Original (Z) 15 20 30 15 20 40 New (X) New (Y)

What am I missing? When I run the code below I get the error message "Error: ggplot2 doesn't know how to deal with data of class function" Googling suggests a message of "Error: ggplot2 doesn't know how to deal with data of class XXX" is not uncommon but I don't see why I am getting a "function" error unless I am using some reserved word?

Hi, I want to make a plot similar to sm1 (attached). The code I tried is: dcols <- densCols(x,y) smoothScatter(x,y, col = dcols, pch=20,xlab="A",ylab="B") abline(h=0, col="red") But it turned out to be s1 (attached) with big dots. I was wondering if anything wrong with my code. Thanks,Zhengyu -------------- next part -------------- A non-text

Hi All, whenever I open R using the shortcut on desktop, there are 2 active datasets in the workspace, I tried to start the program from Start menu, same thing!! How can I delete these two active datasets and make sure whenever I restart the program, they wont appear? Thanks! [[alternative HTML version deleted]]

Hi, Kbytes RSS rNo 2689632 1450876 1433788 2689632 1450876 1433788 2689632 1450876 1433788 2689632 1450876 1433788 2689632 1450876 1433788 2689632 1450876 1433788 2689632 1450876 1433788 2689632 1460168 1443084 plot(data$rNo,data$RSS,pch=0,type="b",col=36,axes=FALSE, ylab="", xlab="",las=2,lwd=2.5) title(" PID -

Dear All, I have a data sets as shown below A (Patient ID ), B and C are the Concentration of drug in blood on day 1 and day 4, D is the difference in conc. To do this in R I have written a code as follows, identified the number of patients who have more concentration on day 4 . Here I want to identify specifically the patient ID (is he patient 1 or 2 or 5 and 7), whose concentration is more. How