Displaying 7 results from an estimated 7 matches for "introns".
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2010 Apr 29
1
Using plyr::dply more (memory) efficiently?
Hi all,
In short:
I'm running ddply on an admittedly (somehow) large data.frame (not
that large). It runs fine until it finishes and gets to the
"collating" part where all subsets of my data.frame have been
summarized and they are being reassembled into the final summary
data.frame (sorry, don't know the correct plyr terminology). During
collation, my R workspace RAM usage goes
2011 Nov 15
1
Problem with substr
...tmp.subject,type="local") # align all exons pairwise to gene
sequence
tmp.start<-start(subject(tmp.align)) # vector of all alignment
starts
tmp.end<-end(subject(tmp.align)) # vector of all alignment ends
for(ex in 1:(length(tmp.end)-1)){ # extract introns
tmp.intron<-substr(tmp.subject,tmp.end[ex]+1,tmp.start[ex+1]-1)
introns<-rbind(introns,cbind(tmp.id,tmp.end[ex]+1,tmp.start[ex+1]-1,tmp.intron))
}
}
Thank you
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2008 Feb 21
3
variable syntax problem
...;red", "blue"), by.order=TRUE,
scale.to.gene=FALSE, use.symbol=TRUE, use.mt=FALSE, *main="PDE1A
(red=prostate, blue=tissues[i])"*, ylab="intensity / probeset",
exon.y=1, exon.height=1, exon.bg.col="#c3c3c3",
exon.bg.border.col="black", show.introns=TRUE)
y=y-3
z=z-3
dev.off() }
when i write main=tissues[i] the value is written right. but i would
like to have an additional text...
thanks
paul
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2007 Apr 24
0
new version of seqinR
...ot nucleotide skews
on artificially rearranged prokaryotic chromosomes.
o New function gbk2g2.euk() available. Similarly to gbk2g2(), this function
extracts the coding sequence annotations from a GenBank format file. This
function is specifically designed for eukaryotic sequences, i.e. with
introns.
The output file will contain the coordinates of the exons, along with the
name of the CDS to which they belong.
o After an e-mail by Marcelo Bertalan on 26 Mar 2007, a bug in oriloc()
when
the gbk argument was NULL was found and fixed by Anamaria Necsulea.
o Functions translate() and getT...
2007 Apr 24
0
new version of seqinR
...ot nucleotide skews
on artificially rearranged prokaryotic chromosomes.
o New function gbk2g2.euk() available. Similarly to gbk2g2(), this function
extracts the coding sequence annotations from a GenBank format file. This
function is specifically designed for eukaryotic sequences, i.e. with
introns.
The output file will contain the coordinates of the exons, along with the
name of the CDS to which they belong.
o After an e-mail by Marcelo Bertalan on 26 Mar 2007, a bug in oriloc()
when
the gbk argument was NULL was found and fixed by Anamaria Necsulea.
o Functions translate() and getT...
2002 Nov 27
0
R genetics package now available
The "genetics" package for handling single-locus genetic data is now
available on CRAN in both source and Windows binary formats. The purpose of
this package is to make it easy to create and manipulate genetic
information, and to facility use of this information in statistical models.
The library includes classes and methods for creating, representing, and
manipulating genotypes
2002 Nov 27
0
R genetics package now available
The "genetics" package for handling single-locus genetic data is now
available on CRAN in both source and Windows binary formats. The purpose of
this package is to make it easy to create and manipulate genetic
information, and to facility use of this information in statistical models.
The library includes classes and methods for creating, representing, and
manipulating genotypes