search for: hholly

...s-automatically-and-manually#gradient-colors-for-scatter-plots question. So you could find it too and probably far more quickly then myself as I have also other duties. Cheers Petr BTW, you still post in HTML which could be sometimes problematic in this text only list. From: greg holly [mailto:mak.hholly at gmail.com] Sent: Monday, February 12, 2018 7:07 PM To: Richard M. Heiberger <rmh at temple.edu> Cc: PIKAL Petr <petr.pikal at precheza.cz>; r-help mailing list <r-help at r-project.org> Subject: Re: [R] plotting the regression coefficients Hi Petr and Richard; Thanks for your...

...2,4,1,3)] > >> levels(temp$variable) > > [1] "y2" "y4" "y1" "y3" > >> > > > > And you will get graphs with this new levels ordering. > > > > Cheers > > Petr > > > > From: greg holly [mailto:mak.hholly at gmail.com] > > Sent: Monday, February 12, 2018 8:52 AM > > To: PIKAL Petr <petr.pikal at precheza.cz> > > Cc: r-help mailing list <r-help at r-project.org> > > Subject: Re: [R] plotting the regression coefficients > > > > Hi Petr; > > > &g...

...2" "y3" "y4" > levels(temp$variable) <- levels(temp$variable)[c(2,4,1,3)] > levels(temp$variable) [1] "y2" "y4" "y1" "y3" > And you will get graphs with this new levels ordering. Cheers Petr From: greg holly [mailto:mak.hholly at gmail.com] Sent: Monday, February 12, 2018 8:52 AM To: PIKAL Petr <petr.pikal at precheza.cz> Cc: r-help mailing list <r-help at r-project.org> Subject: Re: [R] plotting the regression coefficients Hi Petr; Thanks so much. This is great! Although last Sunday, alternatively, I have...

...vels(temp$variable) <- levels(temp$variable)[c(2,4,1,3)] >> levels(temp$variable) > [1] "y2" "y4" "y1" "y3" >> > > And you will get graphs with this new levels ordering. > > Cheers > Petr > > From: greg holly [mailto:mak.hholly at gmail.com] > Sent: Monday, February 12, 2018 8:52 AM > To: PIKAL Petr <petr.pikal at precheza.cz> > Cc: r-help mailing list <r-help at r-project.org> > Subject: Re: [R] plotting the regression coefficients > > Hi Petr; > > Thanks so much. This is great! Althou...

...x=par1, y=variable, size=abs(value), > colour=factor(sign(value)))) > > print(p+geom_point()) > > } > > dev.off() > > > > But the real code partly depends on your real data. > > > > Cheers > > Petr > > > > *From:* greg holly [mailto:mak.hholly at gmail.com] > *Sent:* Saturday, February 10, 2018 9:05 PM > > *To:* PIKAL Petr <petr.pikal at precheza.cz> > *Cc:* r-help mailing list <r-help at r-project.org> > *Subject:* Re: [R] plotting the regression coefficients > > > > Hi Peter; > > > > T...

...ow(temp), 2)) pdf("temp.pdf") for (i in 1: length(temp.s)) { p <- ggplot(temp.s[[i]], aes(x=par1, y=variable, size=abs(value), colour=factor(sign(value)))) print(p+geom_point()) } dev.off() But the real code partly depends on your real data. Cheers Petr From: greg holly [mailto:mak.hholly at gmail.com] Sent: Saturday, February 10, 2018 9:05 PM To: PIKAL Petr <petr.pikal at precheza.cz> Cc: r-help mailing list <r-help at r-project.org> Subject: Re: [R] plotting the regression coefficients Hi Peter; The R code you provided works very well. Once again thanks so much for t...

...28 27.58 0.80 [4,] 42.22 14.22 34.70 31.90 Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Thu, May 10, 2018 at 3:13 PM, greg holly <mak.hholly at gmail.com> wrote: > Brent; > > I am sorry. Her is the reproducible data > > structure(list(region = structure(c(1L, 1L, 1L, 1L), .Label = "zilan", > class = "factor"), > Fe_ppmtp = c(8.36, 8.78, 16.52, 42.22), Zn.ppmtp = c(0.44, > 0.58, 2.2...

Dear all; I need to run heatmap. Because my first column in my data is alphanumeric, I can not run as.matrix(scale(my_data)). So I need to make my data readable as in data(mtcars). In *mtcars *data the first column is alphanumeric and has no name. Thanks, Greg [[alternative HTML version deleted]]

...erence/geom_point.html ggplot(mydata, aes(x = X, y = log10_P)) + theme_bw() + theme(panel.border=element_blank(), legend.position="top", axis.text=element_text(size = 8)) + geom_point(aes(color = Traits, size = log10_P)) Jean On Fri, Jun 16, 2017 at 9:33 AM, greg holly <mak.hholly at gmail.com> wrote: > Hi all; > > I am running the following ggplot codes. Runs well. However, I need to > reflect the numeric values of the log10_P to the point size in the graph. > > Your help highly appreciated, > > Regards, > Greg > > > p <- ggplot(my...

...so not great, but maybe it will work for you. See here for some explanation: https://www.amazon.com/Visual-Display-Quantitative-Information/dp/0961392142/ref=sr_1_1?s=books&ie=UTF8&qid=1518092778&sr=1-1&keywords=Tufte Bert On Feb 7, 2018 11:13 PM, "greg holly" <mak.hholly at gmail.com> wrote: > Hi Dear all; > > I would like to create a plot for regression coefficients with each > independent variable (x) along the side and the phenotypes (y) across the > top (as given below). For each data point, direction and magnitude of > effect could be col...

Hi all; I am running the following ggplot codes. Runs well. However, I need to reflect the numeric values of the log10_P to the point size in the graph. Your help highly appreciated, Regards, Greg p <- ggplot(mydata, aes(x = X, y = log10_P)) + theme_bw() +theme(panel.border=element_blank()) + theme(legend.position="top", axis.text=element_text(size = 8)) (p1 <- p +

...d graphics, which as you've discovered doesn't work. Here's av strategy that does: https://cran.r-project.org/web/packages/egg/vignettes/Ecosystem.html This vignette has a good overview, well as info specific to that package. Sarah On Wed, May 30, 2018 at 4:43 AM greg holly <mak.hholly at gmail.com> wrote: > Hi all; > > I need to put 12 different plot2 into the same matrix. So my array for the > matrix will be par(mfrow=c(3,4)). I am running ggplot2 to produce my 12 > plots. For some reason, par(mfrow=c(3,4)) did not turn out 3*4 matrix. > > my basic R c...

...-axis is 733 and they are not numerical (for example the name of one variable is *palmitoyl-arachidonoyl-glycerol (16:0/20:4) [1]**. So, the plot looks very messy in one page. How can I make the plot to print out on multiple pages? Regards, Greg On Thu, Feb 8, 2018 at 4:33 PM, greg holly <mak.hholly at gmail.com> wrote: > Hi Petr; > > Thanks so much. Exactly this is what I need. I will play to change color > and so on but this backbound is perfect to me. I do appreciate your help > and support. > > Regards, > Greg > > On Thu, Feb 8, 2018 at 1:29 PM, PIKAL Petr...

..., size=abs(value), > colour=factor(sign(value)))) > > p+geom_point() > > > > Is this what you wanted? > > > > Cheers > > Petr > > And preferably do not post in HTML, the email content could be scrambled. > > > > *From:* greg holly [mailto:mak.hholly at gmail.com] > *Sent:* Thursday, February 8, 2018 9:23 AM > *To:* PIKAL Petr <petr.pikal at precheza.cz> > *Cc:* r-help mailing list <r-help at r-project.org> > *Subject:* Re: [R] plotting the regression coefficients > > > > Hi Petr; > > > > Thanks f...

Hi all; I need to put 12 different plot2 into the same matrix. So my array for the matrix will be par(mfrow=c(3,4)). I am running ggplot2 to produce my 12 plots. For some reason, par(mfrow=c(3,4)) did not turn out 3*4 matrix. my basic R codes for each plot is par(mfrow=c(3,4)) library(ggplot2) p <- ggplot(a, aes(x=Genotypes, y=Plant_hight, size=Plant_hight, color=Showing_rate)) + . . Best

...ot find the answer, you could try it yourself. Maybe you could try not to convert vector with names to factor, which, for plotting issue is not different from factor coding. See ?read.table for details However I am not sure if it stays in original order. Cheers Petr From: greg holly [mailto:mak.hholly at gmail.com] Sent: Friday, February 16, 2018 6:28 PM To: PIKAL Petr <petr.pikal at precheza.cz> Cc: r-help mailing list <r-help at r-project.org> Subject: Re: [R] Putting 733 discrete categories on Y-axis in qqplot2 as they are Hi Petr; I would like to get a plot with names as they a...

...,3,1)]) > > > p<-ggplot(iris, aes(x=Sepal.Length, y=Species)) > > > p+geom_point() > > > p<-ggplot(iris, aes(x=Sepal.Length, y=MySpecies)) > > > p+geom_point() > > > > > Cheers > > Petr > > > > *From:* greg holly [mailto:mak.hholly at gmail.com] > *Sent:* Friday, February 16, 2018 3:56 PM > *To:* PIKAL Petr <petr.pikal at precheza.cz> > *Cc:* r-help mailing list <r-help at r-project.org> > *Subject:* Re: [R] Putting 733 discrete categories on Y-axis in qqplot2 > as they are > > > > Hi Pe...

Hi Duncan and Bert; I do appreciate for your replies. I just figured out that after x1= noquotes(x) commend my 733*22 matrix returns into n*1 vector. Is there way to keep this as matrix with the dimension of 733*22? Regards, Greg On Tue, Sep 19, 2017 at 10:04 AM, Duncan Murdoch <murdoch.duncan at gmail.com> wrote: > On 19/09/2017 9:47 AM, greg holly wrote: > >> Hi all;

...need to read ?noquote or ?matrix. -- Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Tue, Sep 19, 2017 at 8:20 AM, greg holly <mak.hholly at gmail.com> wrote: > Dear all; > > Thanks. Here are the dput results as Duncan suggested. > > Regards, > > Greg > > structure(list(Sub_Pathways = structure(c(3L, 3L, 3L, 3L, 3L), .Label = > c("Acetylated_Peptides", > "Advanced_Glycation_End-prod...

I have following codes for ggplots. The legends are given in the plot do not match with the values specified in the codes given below. Your helps highly appreciated. Greg library(ggplot2) p <- ggplot(a,aes(x=NO_BMI_FI_beta ,y=FI_beta ,color= Super.Pathway))+ theme_bw() +theme(panel.border=element_blank()) + geom_point(size=3) p2<-p+scale_color_manual(name="Super.Pathway",