similar to: biclust package

Hi, I was trying to draw a heatmap of the bicluster results. With the code given in the biclust package I can only get the heatmap for one cluster at a time (drawHeatmap function). Is there any way that I can get the heatmap for all the clusters at the same time? The code that I am using (biclust documentation) is: #Random 100x50 matrix with a single, up-regulated 10x10 bicluster

Dear all, I share the problem Linda Garcia and Ram Kumar Basnet described; I have a biclust object, containing several clusters. For drawing a heatmap, it is possible to specify the cluster to be plotted. However, I'd like to extract the clusters in this manner: Cond.1 Cond.2 Gene - value - value just like drawHeatmap specifies each cluster. Is there a way to extract single

Hi everybody, I want to use the cluster package (Cluster Analysis Extended Rousseeuw et al.). I downloaded it from the CRAN and installed it on my linux system (fedora core 4). All seemed to be allright. But when trying to launch examples, I obtained the following message : > library(cluster) > data(votes.repub) > agn1 <- agnes(votes.repub, metric = "manhattan",

Hi Matthias, Thanks for your hint! It is just for learning and practicing for me, just like migrate DragonEgg http://lists.llvm.org/pipermail/llvm-dev/2017-September/117201.html the motivating is for learning from GCC and LLVM developers. 在 2017年12月19日 10:07, Matthias Braun 写道: > > >> On Dec 18, 2017, at 9:52 AM, Leslie Zhai via llvm-dev >> <llvm-dev at lists.llvm.org

A new version (0.7.1) of package 'subselect' has been uploaded to CRAN. Package 'subselect' provides functions which assess the quality of variable subsets as surrogates for a full data set, in an exploratory data analysis, and search for subsets which are optimal under various criteria. As of version 0.7 a new function 'leaps' has been added. 'Leaps' performs a

A new version (0.7.1) of package 'subselect' has been uploaded to CRAN. Package 'subselect' provides functions which assess the quality of variable subsets as surrogates for a full data set, in an exploratory data analysis, and search for subsets which are optimal under various criteria. As of version 0.7 a new function 'leaps' has been added. 'Leaps' performs a

I have a dataframe in which I have values 0-255, I wish to transpose them such that: if value > 127.5 value = 1 if value < 127.5 value = -1 I did something similar using the "binarize" function of the biclust package, this transforms my dataframe to 0 and 1 values, but I wish to use -1 and 1 and looking for a way in R to do this. Brian

Good morning! I have 4 questions which trouble me: 1. I want to test the hypothesis that the 2 proportions (the mean of a binomial) which come from 2 different samples are equal. I want to use the following function z= (p1-p2)/ sqrt((p1(1-p1)/n1)+(p2(1-p2)/n2)) which is one of the standard formulas for this case. Is there such a function in R? p1=the proportion from the first sample n1=the

I have a dataframe that has a header like so: class value1 value2 value3 class is a factor the actual values in the columns value1, value2 and value3 are 0-255, I wish to binarize these using biclust. I can do this like so: binarize(dataframe[,-1]) this will return a dataframe, but then I lose my first column class, so I thought I could combine it like so: dataframe <-

Hi all DSGraph users... This is a note to let you know that I just checked in a rather large change to the data structure graph representation. Here are the bonuses of the new representation: 1. Only the DSNode interface changed, mostly in implementation details, so hopefully client code shouldn't be effected. As a metric, nothing had to change in BottomUp or TopDownClosure.cpp for

I would like to see the following information added to the FAQ at vorbis.com, appended to the "Audio Quality" section. "Uiver," "boa," and "jonI" from OPN's #Vorbis channel contributed and reviewed it. "What does the 'quality' setting mean?" Beginning with vorbislib 1.0-rc3, audio quality is no longer measured in kilobits per

Hi, I am Jill, I'm new here and new with llvm. I find that its old PRE.cpp has been removed from llvm-1.9 and the project homepage says that a GVN-PRE pass is being implemented. Since many PRE algorithms have been suggested, and I think PRE further differs according to the specific defination of equivalence, whether it is an "optimal" algorithm and optimal at what metric, etc, can I

Dear R People: I'm building a packages on an Ubuntu Karmic Koala 9.10 system and am getting the following errors: * checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found: ! Font T1/ptm/m/n/10=ptmr8t at 10.0pt not loadable: Metric (TFM) file not found . <to be read again> relax l.7

Hello, I am Uppinder Chugh (irc nick: icebyte), a senior year undergraduate student majoring in Computer Science and Engineering at Indian Institute of Technology, Guwahati. I'm interested to work on the idea of adding the functionality of search result diversification to Xapian. After having brief conversations with mentors on IRC, I would like to compile the discussions and further discuss

Rather specialized. As this appears to be primarily a statistical, not an R programming question, you may do better posting on a statistical site like http://stats.stackexchange.com/ if you don't get a satisfactory reply here . Alternativey, if you think this is a package bug, perhaps contact the package maintainer directly, as (s)he may not monitor this list. -- Bert Bert Gunter

Currently doing some work on local maxima on a random field and have encountered an issue with the Miwa algorithm used with the pmvnorm function in the mvtnorm R package. Based on recommendations by Mi et al., we ran the mvtnorm package using the Miwa algorithm, since we have a maximum of 4 dimensions with non-singular matrices. However, running the estimation procedure in this way, we obtained

Hi Eric, Thanks for having a look into this. I think you have a small typo... B <- matrix(x, nrow=3, byrow = TRUE) should read B <- matrix(y, nrow=3, byrow = TRUE) Regards, Hollie ________________________________ From: R-help <r-help-bounces at r-project.org> on behalf of Eric Berger <ericjberger at gmail.com> Sent: 02 October 2017 16:16:13 To: Bert Gunter Cc: r-help at

The homals package http://www.jstatsoft.org/v31/i04 will get a major programming overhaul. This will take some time, but what's a few years on a 40-year project. Suggestions from the audience are welcome. homals() has a core loop over the m variables in which 1. tapply is used to compute category quantification (centroids) 2. category quantifications are then adjusted to satisfy the

The homals package http://www.jstatsoft.org/v31/i04 will get a major programming overhaul. This will take some time, but what's a few years on a 40-year project. Suggestions from the audience are welcome. homals() has a core loop over the m variables in which 1. tapply is used to compute category quantification (centroids) 2. category quantifications are then adjusted to satisfy the

Hi, I'm currently using EMA package to make clustering and heatmaps. The online doc concerning the package gives the following example code: data(marty) c<-clustering(marty, metric="pearson", method="ward") clustering.plot(c, title="Hierarchical Clustering\nPearson-Ward") which is working perfectly, However, when I'm changing the method to