FAQ Database Discussion Community


Customizing what variables are shown on the sides and on the top of the outputs `corrplot` or `corrgram` in R

r,data-visualization,heatmap,correlation,r-corrplot
Suppose I have the following data: > print(data) date gdp unemp_rate cpi_index rpi_index var1 var2 var3 var4 1 8/31/2009 23:00:00 0.002000575 0.0 0.006539081 0.008466604 0.041601305 0.193230747 0.002260496 0.016428674 2 12/1/2009 0:00:00 0.003890642 0.0 0.007278347 0.011660448 0.012048193 0.022703903 0.003004489 0.015541372 3 3/1/2010 0:00:00 0.005088272 0.2 0.007439852 0.011065007 0.028750000 -0.222946928 0.002789741 0.015225019...

Creating ticks in a matplotlib heatmap based on range of values

python,matplotlib,heatmap
I am creating a heatmap in matplotlib where on the x and y axis is some parameter of a measurement and the color represents the value of the measurement. Matplotlib automatically gives the axes ticks based on the index of the value. For example if on the x axis I...

ggplot heatmap failing to fill tiles

r,ggplot2,heatmap
This (minimal, self-contained) example is broken: require(ggplot2) min_input = c(1, 1, 1, 2, 2, 2, 4, 4, 4) input_range = c(4, 470, 1003, 4, 470, 1003, 4, 470, 1003) density = c( 1.875000e-01, 5.598958e-04, 0.000000e+00, 1.250000e-02, 3.841146e-04, 0.000000e+00, 1.250000e-02, 1.855469e-04, 0.000000e+00) df = data.frame(min_input, input_range, density) pdf(file='problemspace.pdf') ggplot(df, aes(x=min_input, y=input_range,...

Continuing DLL problems with heatmap.py

python,dll,heatmap
I'm having the same problem as has been described previously regarding heatmap.py and some dodgy dll files that spit out an "[Error 193] %1 is not a valid Win32 application" error. My problem is that I cannot find the relevant files - cHeatmap-x86.dll and cHeatmap-x64.dll - on github except for...

Plot only one or few rows of a correlation matrix

python,numpy,matplotlib,heatmap,correlation
I have a correlation matrix named corrdata that I calculated using numpy.corrcoef. Then what I do is extract one or a few rows of this matrix, and now just want to plot them instead of the whole matrix. Because the matrix is no longer square, it is not possible to...

Create a heatmap using Yii2 highcharts widget

highcharts,yii2,heatmap
I am trying to adapt a highcharts heatmap from raw coding to the Yii2 plugin by Milos Schuman. Area and line charts are working but there is not an example of using heatmap and I tried almost everything. This is the code as shown in highcharts demo: $(function () {...

How do I skip rows in Gnuplot when plotting a heat map?

gnuplot,heatmap
I'm trying to plot a heat map in Gnuplot: set view map set size square set cbrange [0:1] splot "input.dat" 1:4:8 w pm3d But I want to skip the rows with the data in the first & fourth column in a particular range without changing xrange and yrange. How can...

matplotlib: binary heat plot

python,matplotlib,heatmap
Let's say I have a 10x10 matrix, that is comprised or just 0s and 1s, represented as a list of lists. How could I use matplotlib to represent such a matrix as a grid of red and black squares? (red for 1, black for 0). I've search extensively, but the...

Creating heat map with R from a square matrix

r,heatmap
I have a gzip compressed file file.gz with 4,726,276 lines where the first and last five lines look like this: FID1 IID1 FID2 IID2 RT EZ Z0 Z1 Z2 PI_HAT PHE DST PPC RATIO CAN -1 CAN 1 OT 0 1.0000 0.0000 0.0000 0.0000 -1 0.745118 0.1111 1.5526 CAN -1...

how to annotate heatmap with unicode text using matplotlib?

python,unicode,matplotlib,heatmap
I'm actually trying out the solution presented in how to annotate heatmap with text in matplotlib? . Although this actually works fine with numbers; I've been trying to do the same with unicode text and the problem is, although simple text is printed out fine, more exotic ones (like greek)...

R hierarchical clustering visualizing classifications without clustering on them

r,heatmap,hierarchical-clustering
I've been studying some data sets using hierarchical clustering. In these data sets, there are a certain number of variables that I want to use to cluster data, and then there are other classification variables that I do not want to cluster on but still want to visualize. What I...

Generating a Heatmap Table in gnuplot

matrix,gnuplot,heatmap
I am trying to generate a Heatmap with gnuplot but with a two distinct information for each entry in the heatmap. While heatmap shows the value as color, I want each block in the heatmap to show textual information as well. The following script creates half of what I have...

How does R heatmap order rows by default?

r,heatmap,dendrogram
The R heatmap() documentation says for Rowv and Colv (i.e. row and column ordering parameters): If either is missing, as by default, then the ordering of the corresponding dendrogram is by the mean value of the rows/columns, i.e., in the case of rows, Rowv <- rowMeans(x, na.rm = na.rm). I...

multi colored Heat Map error Python

python,file,numpy,data,heatmap
I am trying to plot a heat map with multiple colors by reading data from a file. I can very well generate a 2D and normal heat map but not able to plot the one like attached image. When used random numbers I can plot this but while reading data...

Highcharts Heatmap Legend Max

javascript,highcharts,heatmap
I have a highchart heatmap and I make sure my data is between 0 and 100 (kinda percentage) However in this case, the heatmap tries to be smart and shows the legend up to 120 I understand why it works this way but in my case it is not really...

HeatMap with custom colors for each cell

javascript,highcharts,heatmap
i'm trying to generate a heatmap with custom colors for each cell based on the coordinates/ x and y axis points. Now in the fiddle i did this but it is hardcoded, how to make it dynamic, please refer this demo fiddle, wanted to make this part dynamic for all...

How to save levelplot() with like cells merged

r,graphics,spatial,heatmap,levelplot
Say I have a heatmap with contours like so: set.seed(1) X <- matrix(runif(100*200),nrow=100) X <- apply(X,1,sort) #png("Surface.png",width=800,height=400) lattice::levelplot(t(X),contour=TRUE) #dev.off() getwd() it looks like this: There are many ways to make variants of this in R (fields::image.plot(), image(), and so forth. If I save this filled contour plot as a pdf,...

Offline heat map with map background

python,data,matplotlib,offline,heatmap
I am trying to find if we can have background set (as 2D map) for a heat map ? Read data from a file and plot heat map (which is pretty simple) But in offline mode can we have the heat map imposed on the real map ? Any useful...

How to visualize heatmap for thousands of records

java,android,google-app-engine,heatmap
I have a thousands of records (lat,lng) on my java appengine and I'd like to generate a heatmap for it using Android Heatmap Utility. However the raw data set is too big to be transferred via mobile network. How do you preprocess those records into something small enough so it...

R: Changing the size of a heatmap.2 rowname column

r,heatmap,gplots
I used the following code: library("gplots") heatmap.2(assay(vsd)[ens_union,], trace = "none", density.info = "none") To produce the following heatmap: As you can see, the row labels have been cut-off (the first one should, for instance, be ENSMUSG00000000088, but only ENSMUSG0 is displayed). How can I re-size the plot to include the...

Heatmap in R (using the heatmap() function)

r,heatmap
I have a correlation matrix and want to obtain a heat map from cold (negative correlations) to red (positive correlations), with white being 0 correlations. Now, the heatmap command seems to somehow average, even if I say 'scale=none', meaning that the average correlation is portrayed as white (which, in my...

Discontionous heatmap in R

r,heatmap,pheatmap
I wish to create something similar to the following types of discontinuous heat map in R: My data is arranged as follows: k_e percent time .. .. .. .. .. .. I wish k_e to be x-axis, percent on y-axis and time to denote the color. All links I could...

Matlab HeatMap color issue

matlab,heatmap
I am using HeatMap object which provides a HeatMap like the image below. I am using this command: hmo=HeatMap(data,'ColumnLabels',collabels,'ColorMap','copper','RowLabels',rowlabels,'ColumnLabelsRotate',45,'Symmetric',true,'Standardize','ROW'); However, I need the color scale (at the right) to be 0 to 1, and lightest color should represent the lowest value and vice versa. Any help will be appreciated....

Matplotlib heatmap: Image rotated when heatmap plot over it

python,matplotlib,plot,google-visualization,heatmap
I am trying to plot a heatmap on top of an image. What I did: import matplotlib.pyplot as plt import numpy as np import numpy.random import urllib #downloading an example image urllib.urlretrieve("http://tekeye.biz/wp-content/uploads/2013/01/small_playing_cards.png", "/tmp/cards.png") #reading and plotting the image im = plt.imread('/tmp/cards.png') implot = plt.imshow(im) #generating random data for the histogram...

SQL query to select values grouped by hour(col) and weekday(row) based on the timestamp

mysql,group-by,heatmap,weekday
I have searched SO for this question and found slightly similar posts but was unable to adapt to my needs. I have a database with server requests since forever, each one with a timestamp and i'm trying to come up with a query that allows me to create a heatmatrix...

Is it possible to build a heatmap from point data at 60 times per second?

c++,opengl,visualization,simulation,heatmap
I'm working on a simulation for clouds (actual clouds) where the clouds are simulated by 3D points, then projected into a 2D heatmap, about 640x480 units big. The number of points is about 50k, which is as small as I can go without the simulation breaking, but I can't seem...

Heatmap with categorical variables and with phylogenetic tree in R

r,heatmap,categorical-data,phylogeny
:) I have a question and did not find any answer by personal search. I would like to make a heatmap with categorical variables (a bit like this one: heatmap-like plot, but for categorical variables ), and I would like to add on the left side a phylogenetic tree (like...

Heatmap.js directive for Angularjs

angularjs,heatmap
is there a angularJS directive for heatmap.js? http://www.patrick-wied.at/static/heatmapjs/ Can't find anything and can't get it to work Thanks = Edit = I get this error whether I used my code or the one below (both work). My problem was actually the version of the heatmap.js that that I was using...

Suppressing error message from heatmap.2 in knitr/Rmarkdown

r,heatmap,gplots
I am trying to generate a plot using heatmap.2 and print to a pdf_document using Rmarkdown. Whether I call heatmap.2 from the console or in an .Rmd, the plot appears perfectly exactly as I want it. But additionally, I receive the error message: ## Error in plot.new(): figure margins too...