similar to: range and intersection

Dear All, I am trying to finding overlapping regions in two diff datasets for that I am using IRanges. But I am getting an error in the process of doing the overlap. Advance thanks df3.rl<-RangedData(IRanges(start=df3$V3,width=1), + space=df3$start) Error in .normargSEW0(start, "start") : 'start' must be a numeric vector (or NULL) Kumar [[alternative HTML version

Hi How to access the values in the output that is an object of S4 type. I tried to access using subset ( [ ] ) but it is not allowed. Any clue?? Thanks -- Fahim #My code is as follows: require(IRanges); query <- IRanges(c(1, 4, 9), c(5, 7, 10)) subject <- IRanges(c(2, 2, 10), c(2, 3, 12)) findOverlaps(query, subject) Output of find overlap function is: ------------------ 1>

Hi, I want to merge multiple chromosomal regions based on their common intersecting regions. I tried couple of things using while and if loops but did not work out. I would appreciate if anyone could provide me a small piece of code in R to get the intersection of following example: chr1: 100-150 chr1: 79-250 chr1: 100-175 chr1: 300-350 I want the intersection of all four regions as follow:

Hello, I am copying /mnt/foo to /mnt/bar/ rsync --info=name1,del2 -rl /mnt/foo /mnt/bar/ /mnt/foo contains deep directory structure, ie: /mnt/foo/aaa/ /mnt/foo/aaa/somestuff/ /mnt/foo/aaa/somestuff/file1 /mnt/foo/bbb/ /mnt/foo/bbb/someotherstuff/ /mnt/foo/bbb/someotherstuff/file2 I am not interested in details which individual files were copied, just the main directory.

Fourhundred Thecat via rsync <400thecat at lists.samba.org> wrote: > I am copying /mnt/foo to /mnt/bar/ > > rsync --info=name1,del2 -rl /mnt/foo /mnt/bar/ > > /mnt/foo contains deep directory structure, ie: > > /mnt/foo/aaa/ > /mnt/foo/aaa/somestuff/ > /mnt/foo/aaa/somestuff/file1 > > /mnt/foo/bbb/ > /mnt/foo/bbb/someotherstuff/ >

I have the following situation: file2 on remote host and file1 on localhost. file1 and file2 are mostly the same. Simply running rsync remotehost:file2 file2 will actually transfer the entire file. But I would like to use the factt that I have local file1 that is mostly similar to file2. I.e. how can I make rsync to use file1 as a reference while transferring file2? (cp file1 file2 locally and

Hi, I am trying to use rsync for incremental backup and I am facing some issues. I would like to ask your help to understand what is going on and have the proper command line. 1) my goal is I the following folders: ./dest: file3.txt ./orig: file1.txt   file10.txt  file2.txt   file20.txt And I would like to have as incremental backup ./dest: backup      file1.txt     file2.txt  file3.txt

I have a question about the llvm debugging records, especially wrt compile units. In the non-LLVM sense, a compile unit is essentially everything contained within a single .o file, and it is derived from one or more source and header files. Included in a compile unit are functions and global data. Dwarf records refer to compile units in the same way: a compile unit record has children which

Lets say I have two source files file1.c and file2.c The latter just contains sub-routines to be used by the first. i.e. in file1.c I have the line #include "file2.c" Let's say "R CMD SHLIB file1.c" runs perfectly and I want to include the code in a package, "R CMD build" also runs fine but R CMD check" gives * checking whether package

Hi everyone, I have a question for R code to merge. Say I have two dataframes: File1 is: V1 V2 V3 V4 1 100 101 name1 2 200 201 name2 2 300 301 name3 3 400 401 name4 3 500 501 name5 4 600 601 name6 4 700 701 name7 File2 is: V1 V2 V3 V4 1 50 55 p1 3 402 449 p2 4 550 650 p3 4 651 660

Dear, I am using R I'm trying to identify and remove columns and rows in a data frame that are has elements equals. For example in dataframe below. The columns 1, 2,3,4,5 ,6 and 10 (file1) has elements equal then should be removed. How can I ask R to remove those columns with same elements in new dataframe (file2) to result a matrix as follows: file1 1 0 2 2 1 1 5 1 1 1 1 0

> From: Indunil Jayasooriya <indunil75 at gmail.com> > > > > > > [root at centos67 loop]# cat file1 > > > firstname1 > > > firstname2 > > > > > > [root at centos67 loop]# cat file2 > > > lastname1 > > > lastname2 > > > > > > I need a OUTPUT like this > > > > > > > > >

Hi, all: My folders are organized in such a way: root ----branch1 ---------------A -----------------------file1.txt -----------------------file2.txt ---------------B -----------------------file1.txt -----------------------file2.txt ----branch2 ---------------A -----------------------file1.txt -----------------------file2.txt ---------------B -----------------------file1.txt

Hi, > Suppose I have the following source: > > file1: > #include "file2" > #include "file3" > int fn1(void) ... > > file2: > int a; > > file3: > int fn2(void) ... > > then fn1, along with all the base types etc appear to be in compile unit > "file1", the variable a appears to be in compile unit

dir1 <- list.files("C:\\Users\\aalyaari\\Desktop\\cor", "*.bin", full.names = TRUE) dir2 <- list.files("C:\\Users\\aalyaari\\Desktop\\cor2", "*.bin", full.names = TRUE) results <- list() for (.files in dir1){ # read in the 365 files as a vector of numbers for dir1 file1 <- do.call(rbind,(lapply(.files, readBin ,

I have two CSV files (exported from Excel), say file1 and file2. The have the same number of rows, and each has several columns, with names on the first line; and some of the columns in file1 are repeated in file2. Using the "foreign" package, I can read these in separately to dataframes say d1 and d2 with > d1<-read.csv("file1") >

Is there a way to know where is the source, so as to make a source call inside another source smarter? As an example: file1.R is in directory /files/dir1/ file2.R is in directory /files/dir1/dir2/ In file1.R, there is this line: source("dir2/file2.R") So, if I setwd to /files/dir1/, and then I call source("file1.R"), it will run correctly. However, if I setwd to /files,

Colleagues: I have encountered the following situation: SERIES OF COMMANDS source("File1") MORE COMMANDS source("File2") Optimally, I would like File1 and File2 to be merged into a single file (FileMerged). However, if I wrote the following: SERIES OF COMMANDS source("FileMerged") MORE COMMANDS I encounter an error: the File2 portion of FileMerged

Maybe this don't to be the best form to solve your problem, but worked,rs. #!/bin/bash #power by Diego Rodrigues totalFileOne=$(wc -l file1 | cut -d" " -f1) totalFileTwo=$(wc -l file2 | cut -d" " -f1) count=0 if [ ! "${totalFileOne}" -eq "${totalFileTwo}" ];then echo "The two files need of same number of lines" exit 1 fi for

Hello, I have a situation where I have numerous files with numerous hard links to each of them on an ext3 RHEL4.2 system. Some of these files are duplicates of the others. I would like to re-link all of the duplicates to point to a single inode. For instance if file1 has hardlinks link1 and link2, and file2 has hardlinks link3 and link4, I need to change it so that link1, link2 (these