Displaying 3 results from an estimated 3 matches for "genebank".
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genbank
2008 Oct 17
2
R script from Python
...I'm trying to execute R-script from Python. I'm using R 2.7.2, Python 2.5
and WinXP.
I don't won't to use Python/R interface because of nature of project.
Python code :
import subprocess
command = 'c:\\Program Files\\R\\R-2.7.2\\bin\\Rterm.exe --vanilla -q
<d:\\test\\run\\geneBank.r> d:\\output.out'
subprocess.Popen(command).wait()
After that, I get error messages on Rterm.exe terminal :
ARGUMENT 'd<:\lloydMax.r>' __ignored__
ARGUMENT 'd:\output.txt' __ignored__
Why ?
[[alternative HTML version deleted]]
2002 Dec 18
2
gene ontology association
Hello! I don't know if there is some R-package able
to associate ontology to a long list of GeneBank Name (a txt-tab file or
an XML file), i.e.
I would as output a formatted file with 4 columns (1:GeneBank Name
2,3,4:ontology).
I know that I have to perform a mapping of genes, I got a look on
AnnBuilder pkg,
but I 've not idea from where to start.
Some suggestion? Thanks in advance!
A. S.
2010 Jun 16
1
Is there any function to read genbank flat files.
Hi
I am trying to read genbank est flat files. Is there any function in R to do
that. I was looking for something similar to SeqIO.parse(input_handle,
"genbank") in bioPython that convert the genebank sequence into fasta
sequence.
(One option is to call biopython from R but I am not familiar with python
functions so I want to avoid that and I am keeping it as last resort)
Thanks and regards.
--Fahim
--
Fahim Mohammad
Bioinforformatics Lab
University of Louisville
Louisville, KY, USA
Ph: +1-...