similar to: Query about substituting characters in a df

Hi I am looking for suitable packages in R that do regression analyses using least median squares method (or better). Additionally, I am also looking for packages that implement algorithms/methods for detecting outliers that can be discarded before doing the regression analyses. Although some websites refer to "lms" method under package "lps" in R, I am unable to find such a

Hi I am trying to get a table of means of parameter 1 across BINS of parameter 2. I am working in proteomics and a sample of my data is as follows cluster-age clock-rate(evolutionary rate) scopclass 0.002 10 A 0.045 0.1 B 0.13 15 A 0.15 34 D .... .... ....

Hi I have data of the following form ID age member_FLAG 1 25 Y 2 36.75 N 3 75.5 N ......... ......... I want to get a histogram of this data showing distribution of member_flag in each age-bin i.e. how many values in each age bin have a member_flag of 'Y' and how many have 'N'. I was able to do the same using barplot2. However I also need similar

Hi I am looking for a package that 1. reads in a phylogenetic tree in NEXUS format 2. given two members/nodes on the tree, can return the distance between the two using the tree. I came across the following packages on CRAN ouch, ape, apTreeShape, phylgr all of which seem to provide extensive range of functions for reading in a Nexus-format tree and performing phylogenetic analyses, tree

Hi I have a table that goes data cluster_ac clockrate age class 7337 0.9 0.001 alpha_proteins 7888 0.1 0.78 beta proteins etc The class column can have 7-8 different unique values While the clockrate and age columns are floats varying from 0 to 1. I wish to get the average clockrate across each of the classes for this data. I would appreciate your help

Hi I am new to R programming and am using subset to extract part of a data as follows names(dataset) = c("genome1","genome2","dist","score"); prunedrelatives <- subset(dataset, score < -5); However when I use unique to find the number of unique genomes now present in prunedrelatives I get results identical to calling unique(dataset$genome1) although

Hi Thanks much for the prompt response to my earlier enquiry on packages for regression analyses. Along the same topic(?), I have another question about which I could use some input. I am retreiving data from a MySQL database using RODBC. The table has many BLOB columns and each BLOB column has data in the format "id1 \t id2 \t measure \n id3 \t id4 \t measure...." (i.e. multiple rows

Hi I am a newbie to R and am using the lm function to fit my data. This optimization is to be performed for around 45000 files not all of which lend themselves to optimization. Some of these will and do crash. However, How do I ensure that the program simply goes to the next file in line without exiting the code with the error "Error in lm.fit(x, y, offset = offset, singular.ok =

Hi I have a dataframe which has 3 columns of numeric data A,B,C each of which has been obtained independent of the other. We are trying to find out, which of A or B cause C i.e. We are hypothesising that C is the effect and either A or B, not both is the cause. i.e. A causes C and this cause-effect relationship explains B. The data for A contains more noise than that for B. We are working with

Hi I am trying to process tabular data as follows: Data in the input file is of the form genome1 genome2 tree-dist log10escore Genome1 and genome2 are alphabetic. Tree-dist and log10escore are numeric. I wish to extract only those rows from this table where the log10escore is less than -3. data <-read.table(filename); data$log10escore = data$log10escore[ data$log10escore < -3]; I

Dear friends, I have a basic question with R. I'm generating a set of random variables and then combining them using the cbind statement. The code for that is given below. for (i in 1:100) { y <- rpois(i,lambda=10) X0 <- seq(1,1,length=i) X1 <- rnorm(i,mean=5,sd=10) X2 <- rnorm(i,mean=17,sd=12) X3 <- rnorm(i,mean=3, sd=24) ind <- rep(1:5,20) }

Hi I have a table read from a mysql database which is of the kind clusterid clockrate I obtained this table in R as clockrates_table <-sqlQuery(channel,"select...."); I have a function within which I wish to extract the clusterid for a given cluster. Although I know that there is just one row per clusterid in the data frame, I am using subset to extract the clockrate. clockrate =

Hi I am trying to use RODBC in R installed on Windows to access MySQL database (on a linux box). I set up a DSN and specified this DSN in R as follows library(RODBC); channel <- odbcConnect("mysqldsn"); RODB Connection 5 Details: case=nochange PORT=3306 ........ Although this seems to connect properly, running any command yields NO results. i.e. sqlQuery(channel, "show

Hi Thanks for your response. However I seem to be doing something wrong regarding the try block resulting in yet another error described below. I have a function that takes in a file name and does the fit for the data in that file. Hence based on your input, I tried try ( (fit = lm(y~x, data = data_fitting)), silent = T); I left the subsequent lines of my code unchanged. coeffs =

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This is my first excursion into using reshape2 and I want to ensure that the melt() function call is syntactically correct. The unmodifed data frame is organized this way: head(tds.anal) site sampdate param quant 1 UDS-O 2006-12-06 TDS 10800 4 STC-FS 1996-06-14 Cond 280 7 UDS-O 2007-10-04 Mg 1620 9 UDS-O 2007-10-04 SO4 7580 19 JCM-10B 2007-06-21 Ca 79 20

> I am using a random intercept model with SITEID as random and NAUSEA as > outcome. > > I tried using a dataset without missing values and changed my model > statement accordingly but still get the same error. Follwoing in an excerpt. > > anal.data <- read.table("nausea.txt", header=T, sep="\t") > > list(names(anal.data)) > [[1]] > [1]

Thanks to David's help I subset my large data set and produced a smaller one for a single stream and 7 factors of interest. The structure of this data frame is: str(burns.tds.anal) 'data.frame': 718 obs. of 4 variables: $ site : Factor w/ 143 levels "BC-0.5","BC-1",..: 1 1 4 6 4 4 4 5 5 5 $ sampdate: Date, format: "1996-06-02"

Hi:   I am using the following code to read a data set in txt in R and using the follwoing model. But it seems to give me an error ' expected variable name error pos 134022'. Any help is greatly appreciated.   Code: anal.data <- read.table("nausea.txt", header=T, sep="\t") list(names(anal.data)) attach(anal.data) n.samples <- dim(anal.data) [1] # number of data

E.g. Is it intended to be allowed to call lld::elf::link in 2 different threads at the same time? Follows is an example Valgrind error I ran into when doing the above. I'll try putting a global resource lock on invoking LLD and see if it solves the problem. ==5467== Invalid write of size 8 ==5467== at 0x525509: llvm::DenseMapBase<llvm::DenseMap<llvm::CachedHashStringRef, int,