Displaying 9 results from an estimated 9 matches for "flowcore".
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2009 Apr 10
2
Stacked density plots
...type') and the measurements were repeated a different time points ('day').
I read in the Lattice book that this can be done using the 'flowViz' package, so I tried to reproduce the example given in there and obtained an error:
library('flowViz')
data(GvHD, package='flowCore")
densityplot(Visit~'FSC-H'|Patient, data=GvHD)
Error: ' "FSC-H" ' is/are no valid parameter(s) in this frame
I am not sure if I am missing something. I was hoping to apply something similar to my data, maybe like this?
desityplot(id~pid|type+day, data=mydata)...
2011 Oct 04
0
Adding multiple gates/filters in densityplot
Hi R-Users,
I posted this question a while ago on the bioconductor mailing list but got no answers. Maybe here is somebody who might know a solution:
I failed at drawing multiple filters in a densityplot() using the FlowCore/FlowViz packages.
I
found a way to draw multiple filters in xyplot(), using the glpolygon
method within the panel-function, but some similar attempts for
densityplot failed.
I could draw simply some vertical lines using
panel.abline, but this doesn't look as appealing as the original method...
2007 Jun 21
2
Need Help: User Defined R Functions in Sweave/Latex
...egin{figure}\n")
cat("\\includegraphics{",file,"}\n", sep="")
cat("\\caption{", sectionname,"}\n", sep = "")
cat("\\end{figure}\n")
#End figure making
}
@
\begin{document}
Filler text here.\\
<<>>=
library("flowCore")
x <- read.FCS("/home/mdj/data/yifacs2/NL7_PHA03_1.fcs", transformation = FALSE,
alter.names = TRUE);
basicplot(x, nplots = 1, sectionname="myname")
@
End text here \\
\end{document}
testmacro3.tex
\usepackage{/usr/share/R/share/texmf/Sweave}
\begin{document}
Filler te...
2007 Jul 13
2
Flow Cytometry Standard, fcs format in R.
Hi all.
How do I extract date from fcs format file with R. I.e I'd like
make statistical analysis using R-program, but I don't know if there
are R-packets for fcs format file, and using examples.
Thanks.
Pta: In Linux SO exist any program that transform from fcs format to
ASCII text file?
2013 Jan 29
0
Bioconductor flowcytometry
Hi,
This is a quiet a specific question, but i really need help.
I'm using the flowCore package coming from BioConductor.
No i would like to do a transformation, a log tranformation.
Although i think i put everything like it should, i get this error:
Error in log(x, logbase) : Non-numeric argument to mathematical function
which looks like a general calculating problem.
the code i...
2013 Oct 28
0
Como acceder a metadatos de un data.frame
...ADATOS contenidos en el mismo data.frame. En otros
programas de citometria puedo ver esos datos, pero no tienen la ventaja
de R de trabajar con grandes cantidades de archivos.
Alguien sabe como acceder a esos metadatos ? adjunto un data.frame para
que prueben si lo desean. Hay que usar la libreria flowCore de
Bioconductor para poder importar el data.frame.
Muchas gracias,
Eric.
pd. ya he tratado de preguntar lo mismo en la mail-list de bioconductor
pero algo estoy haciendo mal que se rechazan mis correos :(
------------ próxima parte ------------
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Name: 13-10-...
2012 Feb 22
1
Lattice and horizontally stacked density plots
Hello,
I am try to make a density plot where plots are stacked like the one
found here:
http://dsarkar.fhcrc.org/lattice/book/images/Figure_14_03_stdBW.png
I am facing problems, however. Using the code example below, I'd like
to generate a separate panel for each val of id2. Within each panel,
I'd like to have individual histograms each on separate lines based on
the value of id1. ?Note
2013 Oct 29
0
Resumen de R-help-es, Vol 56, Envío 29
...el mismo data.frame. En otros
>programas de citometria puedo ver esos datos, pero no tienen la ventaja
>de R de trabajar con grandes cantidades de archivos.
>
>Alguien sabe como acceder a esos metadatos ? adjunto un data.frame para
>que prueben si lo desean. Hay que usar la libreria flowCore de
>Bioconductor para poder importar el data.frame.
>
>Muchas gracias,
>
>Eric.
>
>
>pd. ya he tratado de preguntar lo mismo en la mail-list de bioconductor
>pero algo estoy haciendo mal que se rechazan mis correos :(
>------------ próxima parte ------------
>A non-...
2011 Dec 22
5
Como calcular la media de una gran cantidad de flow.frame en un ciclo "for" ...
Queridos amigos tengo el siguiente problema:
Tengo alrededor de 100 archivos del tipo flowFrame (datos de citometria)
que he importado a R. Estos archivos tienen 6 columnas y 10.000 (diez mil)
filas. Tengo que calcular el promedio de la quinta columna y graficarlo
contra el promedio de la segunda columna. La segunda columna tiene el mismo
valor para las 10.000 filas en cada archivo asi es que