similar to: heat map - how to import a graphic?

Hello, I have a large data set from RNA sequencing and I am trying to make a heat map of my data. I have am having issues formatting my heat map figure. My data set is large with the log2 fold change for over 6oo genes across 4 treatments. My csv file is formatted as such: Gene Drought Ozone Temp1 Temp2 Glyma0041s00260

Hi all, I would like to use R in order to generate a Heatmap/Choropleth overlaid on the UK map. Can someone please help with finding the right package/code? Any help is much appreciated. Best, Reza [[alternative HTML version deleted]]

Dear All, I would like to do the following: make a plot of the world and color a few selected states. Some states have an associated scalar (i.e a simple number) and I would like to paint them using a heat map and show legend for the color map in the plot. One or two states do not have any number associated to them and are simply colored/filled according to a distinctive pattern that I choose. To

Hello, I am trying to make a heatmap in R and am having some trouble. I am very new to the world of R, but have been told that what I am trying to do should be possible. I want to make a heat map that looks like a gene expression heatmap (see http://en.wikipedia.org/wiki/Heat_map). I have 43 samples and 900 genes (yes I know this will be a huge map). I also have copy numbers associated with

Hi all! I want to generate a heat map from an all-vs-all comparison. I have the data, already scaled to 0-1. However, I have the values only for the comparisons in one way, and not for the comparisons between the same group (which are always 1), i.e. I have half the matrix and am missing the other half and the diagonal. What is a good way to get it into a form that ggplot2 can use for the

Does anyone have information about using the National Practitioner Data Bank (NPDB) in R? It's public use data available from the U.S. Department of Health and Human Services that can be downloaded as a .dat or .por file. I can't even figure out how to open the file in R. [[alternative HTML version deleted]]

Hi all, I have read posts of heat map creation but I am one step prior -- Here is what I am trying to do and wonder if you have any tips? We are trying to map sequence reads from tumors to viral genomes. Example input file : 111 abc 111 sdf 111 xyz 1079 abc 1079 xyz 1079 xyz 5576 abc 5576 sdf 5576 sdf How may xyz's are there for 1079 and 111? How many abc's, etc?

Hi all A slightly off topic post, but one that I think someone out there in the NUT community could probably help me with. Summer is coming, and my office at home is getting hot... helped in part by the APC 3KVA UPS I have sitting under my desk. It kicks out heat like a bar-heater, even when there is almost no load on it (idle load is one PC, one switch, one wireless AP, and thats it). It is

Hi, I have spatial data for plants that I would like to plot according to its radius using sysmbols(). Also I would like to color the circles according to an individual's age using heat.colors(17) [ages within the whole data set range from 0:16]. I have not found an easy way to assign ages (=a) a specific heat.color. Any suggestions? Thanks, Patrick x <- c(1,3,4,6,7,3,2,8,3,6,5,5) y

Hi all, I'm trying to using heat.color function in my data visualization. So, when I set col = heat.color(5), five different colors are displayed from red to weak yellow. But, now I want to know the color's keys or the names of the displayed heat.color. For instance, I think one of the five displayed colors seems to be 'red'. But, I'm not sure whether it is, also I don't

I was wondering if someone could point in the direction of a package that could generate not heatmaps, but something like a unidimensional heat map. I might be mistaken, but it seems like image and heatmap are an overkill for such a simple task. For example, if I have a data frame: x<-data.frame(myname=paste("value",1:10,sep=""),a=1:10,b=sample(1:10,10,replace=T)) I'd

Hi, I have a table with data, as below: dput(table): structure(list(Adrian.Cole = c(0L, 0L, 0L, 0L, 0L, 0L), Alison.Wong = c(0L, 0L, 0L, 0L, 0L, 0L), Andrei.Savu = c(0L, 0L, 0L, 0L, 0L, 0L), Bruno.Dumon = c(0L, 0L, 0L, 0L, 0L, 0L), Edward.J..Yoon = c(0L, 0L, 0L, 0L, 0L, 0L), Eugene.Koontz = c(0L, 0L, 0L, 0L, 0L, 0L), Jakob.Homan = c(0L, 0L, 0L, 0L, 0L, 0L), Kelvin.Kakugawa = c(0L, 0L,

Hello Everyone I am new to R I have drawn indifference curves using the program below (Contour Plot) u <- function(x, y) x^0.5 + y^0.5 x <- seq(0, 1000, by=1) y <- seq(0, 1000, by=1) a <- c(10, 20, 30) contour(x, y, outer(x, y, u),levels=a,col="blue") Now can any body please tell me how to draw Heat maps and that too on the same indifference curve plot (contour)

Dear Debian persons I would like enquire about whether the repository deb https://cloud.r-project.org/bin/linux/ubuntu bionic-cran35/ I tried to follow the instructions and I cannot get R3.5.1 - I get R3.4.4??? I have been able to install R3.5.1 on Ubuntu 16.02 using the xenial-cran35/ repository & so not sure if the bionic link is up to date? thanks in advance Regards Alison

Dear List, Does there exist a function that produces a heat map like this one (image 3 of 4): http://www.tdameritrade.com/tradingtools/options360.html?a=HDY&referrer=http%3A%2F%2Fquery.nytimes.com%2Fsearch%2Fsitesearch%3Fquery%3Dheatmaptype%3Dnyt In addition to colors, two other main features I am intersted in are: 1. Proportionality in the size of the grid. 2. Mose-over capability. I may

Hello, I am not only interested in finding out which genes are the most highly up- or down-regulated (which I have done using the linear models and Bayesian statistics in Limma), but I also want to know which genes are consistently highly transcribed (ie. they have a high intensity in the channel of interest eg. Cy5 or Cy3 across the set of experiments). I might have missed a straight forward

CVS HEAD from about 1 week ago. TDM30P and call through Nufone. I was talking and wanted to park the call and move to another phone to pick it up. I hit #701 instead of #700 though -- after a pause, I got a fast busy and the call was gone. When I called the person back, she said that Alison told HER that 701 was an invalid extension. I should have heard that though, not her. If I dial

Hi folks, With thanks to Alison Keenan (another Alison!) for the voice, Chris Bagnal for converting from 44k wav to sln and finally Terje Elde for debugging my HTML code, the British English files are now ready for download. They can be got from http://www.enicomms.com/cutglassivr/ Thanks and don't forget to practice safe IAX ;-} Mark -- Mark Phillips <g7ltt@g7ltt.com>

r-help lattice adepts: I have a question which is somewhat geospatial, so I posted to r-sig-geo rather than here: https://stat.ethz.ch/pipermail/r-sig-geo/2012-November/016757.html > summary: How to overlay a geographical map on each panel in a lattice > (or Trellis), e.g., of levelplot's? Note I am not inquiring about > creating choropleth maps[,] which Sarkar 2008 covers quite

Hello all, I am trying to use the micEcon 'insertRow' function inside a function I have written. For example: insert_row_test <- function(m){ insertRow(m,nrow(m)+1,v=0,rName="test") } However, when I try to call the 'insert_row_test' function (after loading the micEcon package), it does not insert a row into the matrix I pass in. When I call the insertRow