similar to: problem building dendrograms to use with heatmap()

Hello, I am using R to train a logistic regression model and save the resulting model to disk. I am then subsequently reloading these saved objects, and using predict.glm on them in order to make predictions about single-row data frames that are generated in real-time from requests arriving at an HTTP server. The following code demonstrates the sort of R calls that I have in mind: > cases

Hello, I'm looking at compiling some pieces of the standard library with llvm but I'm running into problems with some functions being renamed by dragonegg. For example, when I compile the acos implementation with plain gcc I get: $ nm acos.o 0000000000000000 r .LC1 0000000000000048 r .LC10 0000000000000050 r .LC11 0000000000000058 r .LC12 0000000000000060 r .LC13 0000000000000068 r .LC14

Dear all I'm a newbie regarding netcdf data. Today I realized that I maybe do not understand some basics of the netcdf. I want to create a *.nc file containing three variables for Switzerland. All data outside of the country are NAs. The third variable is calculated from the first two variables. Basically there is no problem to do that. I copy the file with the data of the first variable,

Hi Gregory, > I'm looking at compiling some pieces of the standard library with llvm but I'm > running into problems with some functions being renamed by dragonegg. For > example, when I compile the acos implementation with plain gcc I get: > > $ nm acos.o > 0000000000000000 r .LC1 > 0000000000000048 r .LC10 > 0000000000000050 r .LC11 > 0000000000000058 r .LC12

On Mon, Aug 14, 2017 at 5:29 AM, <raphael.felber at agroscope.admin.ch> wrote: Dear all > > I'm a newbie regarding netcdf data. Today I realized that I maybe do not > understand some basics of the netcdf. I want to create a *.nc file > containing three variables for Switzerland. All data outside of the country > are NAs. The third variable is calculated from the first two

Hi, I am using the function heatmap(stats) to draw a microarray heatmap, columns are samples and rows are gene features. I did a 2D clustering during the heatmap drawing. The features and samples indeed cluster into several blocks both vertically and horizontally. I can get the index of re-ordered rows and columns after the heatmap drawing by typing the the return variable of the heatmap

Hello, I have been using the "cophenetic" function for objects of class "dendrogram" and I have realised that it gives different results when it is used with objects of class "hclust". For instance, running the first example in the help file of the "cophenetic" function, d1 <- dist(USArrests) hc <- hclust(d1, "ave") d2 <-

I would like to draw horizontal or vertical lines on a heatmap to highlight the clusters at some specified cut depth of the dendrogram. As a hacked example, the following code would work if I could set the coordinates of the top and bottom of the false color image correctly (ymin and ymax), but the correct values seem to depend on the output device and its size. I realize that heatmaps use a 2x2

Hi, I have produced a dendrogram of categorical data in R using the hclust function, although the input was a dissimilarity matrix produced in SAS, as I have defined my own distances. The dendrogram is fine and I can view and use this. However, I was wondering if there is a method by which I can find out the optimal place to place groups, rather than relying on my visual analysis? I don't

I am having difficulty getting the dynamic tree cut package to work. Given the data table "myddtable" LengthPlaceColorAge5HRed224ABlue205WGreen243GRed222GBlue236WGreen255ARed194H Blue23 I created a similarity matrix using DAISY and Gower metric and specified Place and Color columns as characters (since they are categorical variables) > dd.daisy<-daisy(myddtable, metric =

Note that cophenetic.default (which works on the output of hclust(dist(X))) uses the row names of X as labels. as.dendrogram.hclust does not retain those row names so cophenetic.dendrogram cannot use them (so it orders them based on the topology of the dendrogram). Bill Dunlap TIBCO Software wdunlap tibco.com On Thu, Apr 21, 2016 at 7:59 AM, William Dunlap <wdunlap at tibco.com> wrote:

On 5/1/24 17:51, Peter Carlson via samba wrote: > > On 5/1/24 17:32, Peter Carlson via samba wrote: >> >>>>>> In an ideal world, the Samba dns server (be it the internal or >>>>>> Bind9) should just be responsible for the AD domain and forward >>>>>> anything unknown to another dns server (which is how dns servers

I have fitted a logistic regression model > failed.lr2$call lrm(formula = failed ~ Age + task2 + Age:task2, data = time.long, na.action = na.omit) using the Design package functions and would like to generate a nomogram from this model. the datadist information is generated and stored in > ddist time.long$Age time.long$task2 Low:effect 45

Hello, I am using R to train a logistic regression model and save the resulting model to disk. I am then subsequently reloading these saved objects, and using predict.glm on them in order to make predictions about single-row data frames that are generated in real-time from requests arriving at an HTTP server. The following code demonstrates the sort of R calls that I have in mind: > cases

I am having difficulty getting the dynamic tree cut package to work. Given the data table "myddtable" LengthPlaceColorAge5HRed224ABlue205WGreen243GRed222GBlue236WGreen255ARed194H Blue23 I created a similarity matrix using DAISY and Gower metric and specified Place and Color columns as characters (since they are categorical variables) > dd.daisy<-daisy(myddtable, metric =

Hi, I have been examining large data and need to do simple linear regression with the data which is grouped based on the values of a particular attribute. For instance, consider three columns : ID, x, y, and I need to regress x on y for each distinct value of ID. Specifically, for the set of data corresponding to each of the 4 values of ID (76,111,121,168) in the below data, I should invoke

*Good day!* I'm using Vista(x64) and R 2.13.0(x64) (with ncdf and RnetCDF packs) *I have a problem:* I'm trying to open **.nc* file and I use this script (http://r.789695.n4.nabble.com/Problem-downloading-and-opening-netcdf-file-td3046897.html#a3046965) library(ncdf) link <- "http://ibis.grdl.noaa.gov/SAT/SeaLevelRise/slr/slr_sla_gbl_free_all_66.nc" dest <-

well! excuse me again but... your.string <- "aaacdf" nc1 <- nchar(your.string)-1 x <- unlist(strsplit(your.string, NULL)) ######## CORRECT x2 <- c() for (i in 1:nc1) x2 <- c(x2, paste(x[i], x[i+1], sep="")) ######## ERRATA 2 cat("ocurrences of <aa> in <your.string>: ", length(grep("aa", x2)), sep="", fill=TRUE) Fran

I am trying to download and open an on-line netcdf file. I'm using Windows XP and R 2.11.1 Here's my script library(ncdf) link <- "http://ibis.grdl.noaa.gov/SAT/SeaLevelRise/slr/slr_sla_gbl_free_all_66.nc" dest <- "C:/temp/slr_sla_gbl_free_all_66.nc" download.file(url=link,destfile=dest) nc1 <- open.ncdf(dest) The file appears in my C:/temp

I am having trouble displaying a dendrogram of evolutionary relationships (a phylogram imported from the ape package) as the vertical component of a heatmap, but keeping the hierarchical clustering of the horizontal component. The relationships of the vertical component in the generated heatmap are not that of the dendrogram, although the ordering is. In more detail, I am attempting to generate