You could read the output file into R using the following code,
assuming the output file has a header and is tab-delimited.
X = read.table(sissrsoutput.txt, sep="\t", header=TRUE)
Then convert X to RangedData using the following line of code assuming
you have a named column start (start of the peak), end (end of the
peak) and chromosome (chromosome of the peak).
PeaksRD = RangedData(IRanges(start = X$start, end=X$end),
On 3/29/13 8:06 AM, "Gaurav Pandey" <email@example.com>
Ma'am how to use it for Sissrs output (a tesxt file) ?
On Mon, Mar 18, 2013 at 6:45 PM, Zhu, Lihua (Julie)
Did you try to download the package using the following code in a R
session? To use all the functions, please install R 2.15.2.
<http: bioconductor.org="" bioclite.r=""> ")
If you still have problem, could you please send the sessionInfo()?
Could you please also copy firstname.lastname@example.org
<http: email@example.com=""> ? Thanks!
On 3/17/13 1:58 PM, "Gaurav Pandey" <firstname.lastname@example.org <http:="" email@example.com=""> > wrote:
Thanks a lot Ma'am..but i am not able to install the package.., it
gave folllowing errors:
Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
cannot open the connection
In addition: Warning messages:
1: In download.file(url, destfile, method, mode = "wb", ...) :
downloaded length 4676560 != reported length 18821426
2: In unzip(zipname, exdir = dest) : error 1 in extracting from zip
3: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
cannot open compressed file
'BSgenome.Ecoli.NCBI.20080805/DESCRIPTION', probable reason 'No such
file or directory'
[[alternative HTML version deleted]]