similar to: how to make plot lines thicker

I am trying to input an OTU table into EstimateS, however, the format of the OTU table has to be changed to fit the format EstimateS will accept. In R, I would like to change the format of the OTU table (from excel). Here is what I need to do, take Example 1 and create Example 2. The problem is that I have hundreds of OTUs, so I can't do this by hand (and I'd love to have a code that I

Dear R-help community, I need to find out how to make the black axis line around my plot thicker in levelplot, I cannot find the correct command in ?levelplot or ?par - or if it is there I cannot get it to work - any help would be more that appreciated! Here's an example script - I would want the code for making the axis bordering the plot thicker: x<- seq(pi/4, 5*pi,length=100)

Is there anyway to make plotting point character being thicker in xyplot? I mean not larger which can achieved by "cex=2", but thicker. I tried lwd=2, but it didn't work. I know "lwd" works in regular plot() not only for lines, but also for points. For example plot(1:10, lwd=2) Thanks John

Hello, I am drawing a boxplot using bwplot in lattice. I would like to learn how to draw a thicker median line instead of the default setting. Thank you. Code bwplot(........, pch=rep("|",2)) Elaine [[alternative HTML version deleted]]

I'm using a histogram and want to overlay this onto a barplot. I need the histogram lines to be thicker in order for it to stand out more on top of the barplot. Is there a command in order to do this? Thanks in advance. -- View this message in context: http://r.789695.n4.nabble.com/Making-the-lines-thicker-in-histogram-tp4119639p4119639.html Sent from the R help mailing list archive at

Hi I need to know how to make pch symbols like pch=3 (+) or pch=4(x) or even the border of squares or triangles thicker without changing the size. I have a lot of symbols of different colors but you can't see the colors clearly and I don't want to change the symbol. Thanks! -- View this message in context: http://r.789695.n4.nabble.com/How-to-make-pch-symbols-thicker-tp4648295.html

Hi, how can I make the point characters thicker (NOT larger) in xyplot when groups= argument is used? dat<-data.frame(x=1:100,y=1:100,group=rep(LETTERS[1:5],each=20)) ### lwd=2 doesn't work here xyplot(y~x,groups=group,data=dat,col=1:4,pch=1:4,lwd=2) ### lwd=2 works with panel.points(), but grouping is messed up! xyplot(y~x,groups=group,data=dat,col=1:4,pch=1:4,

Hi, I have two somewhat embarassing questions about the lattice-related plot functions: 1.) How do I make lattice (e.g. barchart) to not draw a box but only a y-axis on the left hand side so that the plot looks like barplot with default settings? So that the following two code snippets look more alike: barplot(VADeaths) library(reshape) vad <- melt(data.frame(VADeaths,

Hello, I calculate the correlation between two matrices cor(x,y, method="spearman") and I am wondering if it possible to see only the significant correlations. I can do that for single OTUs with cor.test() command but I would like to have an output for whole matrix. Besides,I would like to plot the relative abundance of each OTU, against the number of significant pair-wise correlations

Dear colleagues, I would like to have GAM regression lines (package gam) thicker than the default setting does. Is there any way to change the width of regression line when plotting gam.objects from the package GAM with more than one predictor? Changing lwd parameter in plot function controls all line components, including points making them thicker as well, which is not what I would like to

Hi! Thanks for providing great help in R-related statistics. Now, however I'm stuck. I'm not a statistics person but I was recommended to use R to perform a nmds plot and PerMANOVA of my dataset. Sample(treatment) in the columns and species (OTU) in the rows. I have 4 treatments (Ambient Temperature, Ambient temperature+Low pH, High temperature, High temperature+low pH), and I have 16

Hello, A made a xyplot using the lattice library in R (latest version). The publisher of our paper has requested: 1. all tick marks should point inwards instead of outwards. 2. All lines should be thicker (lines, axes, boxes, etc. Everything). Lines is easy...I used: lwd=1.5 but what about the lines of the axes, and the lines that build up the plot itself?....? Any

Hi, Using Vegan package I was wondering if there's a way to use a distance matrix as an input for adonis (or any of the other similar hypothesis testing functions) instead of the usual species by sample table. Working in the field of microbial ecology, what I'm trying to do is to overcome the problem of having to use discrete units such as species or OTUs, which are problematic in

I am trying to find the percentage of the parameters explaining the bacterial community composition. I have one data matrix with relative abundance of OTUs and one with environmental parameters. I used varpart in vegan package but the values in the venn diagram is bigger than 100% in total.How is it possible? What might be the reason? Thank you library(vegan) gotud <-

Hi, I am clustering objects using the agnes() function and the UPGMA clustering method (function = "average"). Everything works well, but apparently something is wrong with the dendrogram. For example: x<-c(102,102.1,112.5,113,100.3,108.2,101.1,104,105.5,106.3) y<-c(110,111,110.2,112.1,119.5,122.1,102,112,112.5,115) xy<-cbind(x,y) library(cluster) UPGMA.orig<-agnes(x)

Hi, I would like to modify how barplot .... plots. For reasons only my supervisor comprehends i need to do the crisscross lines in the bar thicker. If i use lwd=2 the y-axis is thicker, (i use the option beside = TRUE) but nothing else is affected by this parameter - it seems. I looked at the barplot.r code but i am afraid i don't quite understand it so ..... i am at loss. I am using

Hi, I am trying to produce a 30x30 lattice grid. The 30 variables naturally fall into three groups of ten and I would like to add thicker axis lines around these to highlight this. However, I can only do this separately, so far, and I don't know how to superimpose the grid with the thicker lines (separating the 10x10 groups) onto the overall grid of all 30x30 plots. I enclose a

Hi all,, Is it possible to set a thicker line for the box around the plots? (i.e. for the four axes) Something like lwd (lines) but for the box. Thanks juli -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the

Perhaps I'm being even thicker than usual, but I can't find the tcltk package on CRAN. There is a tcltk2 package, which says that it is a collection of supplements to tcltk, but I cannot see a just-plain tcltk anywhere. If I try to install tcltk2 (from the Linux command line, or using install.packages() in R) it complains that it needs tcltk. If I try to install tcltk using

I've done a little snooping around the R Gallery Site (http://addictedtor.free.fr/graphiques/) and the "Statistics with R" site (http://zoonek2.free.fr/UNIX/48_R/all.html), but I can't seem to find what I'm looking for.  Here is the type of plot I would like to draw: (1) 2-D three axis plot where each axis is separated by 120-degrees (would be great if the number of axis