similar to: Why read.table replacing space with "." in the header

Greetings, I am attempting to run a function, which produces a vector and requires two input variables, across two nested factor levels. I can do this using by(X, list(factor1, factor2), function), however I haven't found a simple way to extract the list output into an organized vector form. I can do this using nested loops but it isn't exactly an optimal approach. Thank you

Hi, I am trying to aggregate the sum of my test data.frame as follow: testDF <- data.frame(v1 = c("a", "a", "a", "a", "a", "b", "b", "b", "b", "b", "c", "c", "c", "c", "c", "d", "d", "d", "d",

Hello, I've been trying to figure out how to access the individual elements from an object of class phylo. I am reading in 201 trees created by paup as below. > read.nexus("A_30knj_200t.txt", tree.names= NULL) -> anj30 > anj30[1] $tree1 $edge [,1] [,2] [1,] "-1" "-2" [2,] "-2" "-3" [3,] "-3" "1"

Fellow R programmers, I'd like to submit SQLDF statements with R objects as column names. For example, I want to assign "X" to "var1" (var1<-"X") and then refer to "var1" in the SQLDF statement. SQLDF needs to understand that when I reference "var1", it should look for "X" in the dataframe. This is necessary because my SQLDF

Hello - I would like to create a wrapper to the 'save' function in the base package, but have a small problem with the name of the object that is getting saved in the file. Below is a simple example illustrating my problem. ## BEGIN SAMPLE R CODE ################################################## ## Here is the wrapper for the save function

Dear R-help - Thanks to those who replied yesterday (Christos H. and Thomas L.) regarding my question on coxph and model formula, the answers worked perfectly. My new question involves the following. I want to run several coxph models (package survival) with the same dataset, but different subsets of that dataset. I have found a way to do this, described below in functions subwrap1 and

Hello (and Happy New Year), When I create a factor with labels in the order I want, write the data as a text file, and then retrieve them, the factor levels are no longer in the proper order. Here is what I do (I tried many variations): # educ is a numeric vector with 1,001 observations. # There is one NA # Use educ to create a factor feducord <- factor(educ, labels = c('Elem',

Dear R-helpers: May I ask a question related to storing a number of lmer model fit into a list. Basically, I have a for-loop (see towards the bottom of this email) in the loop, I am very sure that the i-th model fit (i.e.,fit_i) is successfully generated and the character string (i.e., tmp_i) is created correctly. The problem stems from the following line in the for-loop #trouble making line

Dear all, I'm analysing a survey, and creating a barchart of the different responses for each question. The questions are grouped according to a number of categories, so I'm using lattice to create a plot with each question in a category on it. The problem is that the response set for different questions within the same category varies. I want to be able to draw only the relevant

Dear list, I am sorry for asking you this, but I am trying to do again what I thought I have done before, although this time it does not work. So, given the data set: > testdf <- data.frame(grfak=sample(c("One","Two"),size=100,replace=TRUE), panfak= sample(c("Yes","No"),size=100,replace=TRUE), xfak=

Hi R users I trying to some aggregate statistics on a very large dataset. The null values are causing a problem. I would like to calculate aggregate values for groups. I am just no sure how to deal with the "" I would ideally like them to ignored ie if there is only 1 value over several columns than that value would be the summary statistic. I have put the following example together to

Dear list, Please find below an example of odd behaviour of the by function. It occurs both under GNU/Linux R 2.6.2 and Windows R 2.7.0alpha. Respective sessionInfo()'s are given below. I hope I do not overlook anything. testFactor <- factor(sample(LETTERS[1:6], size = 42, replace = TRUE)) testMatrix <- matrix(rnorm(42 * 6), nrow = 42) testDf <- as.data.frame(testMatrix) by(data

Hi, I was recently splitting some massive phylo class objects with extract.clade() and noticed what appears to be a bug in how tip labels are copied from the full tree to the pruned tree. This possible bug was also mentioned here: http://www.mail-archive.com/r-sig-phylo at r-project.org/msg00537.html An example: library(ape) set.seed(5) x <- matrix(rnorm(100), ncol=10) p <-

Let's say I would like to look inside the function corBrownian in library (ape). When I type in the function name I get the following, which is not nearly the detail that goes into this function. I am wondering how to begin cracking this function open (and others) so I can learn more about it and perhaps code my own corClass one day. Thanks. > corBrownian function (value = 1, phy, form

Dear list, I am trying to plot a radial dendrogram using the ape package, which requires my data to be of class 'phylo'. Currently I have my dendrogram stored as an object of class 'dendrogram' which was produced from an outside bit of C code, but was made into an object of class 'igraph.eigenc' and converted to a dendrogram using 'as.dendrogram()' from the igraph

Hi, I'm doing hierarchical clustering, and want to export my dendrogram to a tree-viewing/editing software. I can do this by converting the data to Newick format (hc2Newick in ctc package), but I can't get branch lengths to show in the resulting phylogram. I figured it might help to convert my hclust object into a phylo object (as.phylo in ape package), but the following lines give me

Hi, I have been trying for days to solve this to no avail. I have taken over the IT responsibilities at a small school and am trying to get my head around their network and why they are having problems. They have 3 servers, Matthew, Genesis and Luke. Matthew is a Windows 2008 R2 server and holds all the FSMO roles but appears to be screwed up. It won't replicate with anything and randomly

I have a dataframe of 25 columns and 100,000 rows called ?testdf?. I wish to build a new dataframe, with 14 columns and 100,000 rows. I wish the new dataframe to have the ?trailing 12 column? mean. That is, I want column 1 of the new dataframe to have soemthing like: ?( mean(testdf[,1:12],na.rm=T)? What is the best way to accomplish this?

On Sun, 28 Feb 2016 15:37, H wrote: > On 02/28/2016 12:27 AM, Liam O'Toole wrote: >> On 2016-02-27, Frank Cox wrote: >> > On Sat, 27 Feb 2016 16:33:00 -0500 H wrote: >> > >> > > No, that I already did. I am talking about the file type when you >> > > open a graphical directory window. >> > I'm missing something here. Do you

OK, tried that. Kicked myself for not trying earlier... but it didn't work. In fact, the error has got worse. Now when I try to go from Genesis to Luke I get: sudo samba-tool drs replicate luke genesis DC=kcs,DC=local -Udomainadmin . . ERROR(<class 'samba.drs_utils.drsException'>): DsReplicaSync failed - drsException: DsReplicaSync failed (1359, 'WERR_INTERNAL_ERROR')