search for: seqlogo

...009 presentation): http://www.agrocampus-ouest.fr/math/useR-2009/abstracts/pdf/Hocking.pdf I downloaded the code for that image, and discovered that it relies on external web services, and also having PERL installed on the computer. I believe this could be done "locally" using the "seqLogo" function/package (see http://www.bioconductor.org/packages/2.2/bioc/html/seqLogo.html), combined with the subplot function (from the "TeachingDemos" package). So my questions are: 1) Might there be other packages/functions that I are more fitting for the task of recreating this plo...

I'd like to stretch a plotted character vertically, to create a "sequence logo". Is there a parameter to allow stretching text() output vertically or squeeze horizontally? I know about Oliver Bembom's seqLogo library, but this generates a sequence logo plot using a separate bitmap device. I want to recreate the sequence logo *inside* an existing plot. Alternatively, is there a way to embed one plot inside another? I could use imagemagick outside R to 'montage' separate bitmaps, but then the...

...ject(s) are masked from ?package:seqinr?: count The following object(s) are masked from ?package:IRanges?: compact, desc, rename Loading required package: gsubfn Loading required package: proto Loading required namespace: tcltk Loading Tcl/Tk interface ... done Loading required package: seqLogo Loading required package: grid > read.bam function (bamfile = NULL, chr = NULL, start = 1, end = 1e+07, what = c("qname", "flag", "rname", "strand", "pos", "qwidth", "mapq", "cigar", "mrnm", &qu...

I have recently upgraded to Ubuntu Gutsy and, for the first time, am using a 64-bit installation. After failing miserably to install R from source, not a problem for me in the past with a 32-bit install, I went the route of using the Debian Etch build. This went smoothly, but I am unable to update my numerous R and BioConductor packages, getting non-zero exit status errors on each package. Is