Displaying 6 results from an estimated 6 matches for "tcga".
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2009 Feb 09
1
XML package- accessing nodes based on attributes
...a\Agilent\Results\</OutputFilePath>
<FilesList>
<File>
<Characteristic Type="File" eName="FileTypeId" eValue="10"/>
<Characteristic Type="File" eName="FilePath" eValue="D:\CN_data\Agilent\TCGA-06-0875-01A-01D-0387-02_US23502331_251469343372_S01_CGH-v4_10_Apr08.txt"/>
<Characteristic Type ="Patient" eName="PatientReference" eValue="TCGA-06-0875-01A"/>
<Characteristic Type ="Patient" eName="Sample...
2011 Oct 06
0
TCGA expression data: plotting ....
Hi,
I am new to R.
I am trying to figure out how to graph expression data from the TCGA
database.
If I understand correctly the expression data I have downloaded is from a
microarray using the AgilentG4502A.
I've had trouble reading into R in the level I, level II, and the gene
expression analysis data using
>dat<-read.table("C:\\file.txt", header=T, row.names=...
2002 Jul 25
0
Réf. : Backing up both AIX and NT using Samba
...drive to not rewind after the first
backup. You have to select the dedicated device for that.
If my memory serves me, the device which does not rewind at backup end is
/dev/rmt{x}.4 or something like that.
So, the batch could be like this:
tar cvf /dev/rmt{x}.4 myfiles_from_AIX
smbclient ... -Tcga /dev/rmt{x} #after the NT backup, the
tape must be rewinded so rmt{x}.4 must not be used
When you restore the AIX files, since they are in the first part of tape,
use /dev/rmt{x}
When you restore the NT files:
1 - tctl /dev/rmt{x}.4 fsf 1 # to skip to the seco...
2002 Jul 24
1
Backing up both AIX and NT using Samba
...lly a "dumb box" with minimal
configuration abilities.
I am able to back up the files on the NT files from this "dumb" box to the
the tape on the IBM 3590 tape drive. To do this I use the smbclient
command:
/tools/samba/bin/smbclient '\\ntbox1\home' xxxx -U xxxx -Tcga
/dev/rmt1
Currently, I have one set of backup tapes for unix and one set for NT. The
NT backup,
using smbclient, is scheduled to run at night. The unix backup is scheduled
to run
in the morning. I have the unix tapes in one tape rack and the NT tapes in
another
tape rack. I put the unix tape rack...
2012 Apr 25
0
FW: [BioC] Overlay Gene Expression on SNP (copy number) data
...t to show some possible cases, it will be re-built against R 2.15 and more case studies are coming.
HTH
Tengfei
Another possibility for visual display of several kinds of data is RCytoscape, for which an example can be seen here:
http://rcytoscape.systemsbiology.net/versions/current/gallery/TCGA/subnet.TCGA.02.0014.png
This portrays
1) gene expression (green: under-expression; red: over-expression)
2) copy number (blue: high, black: low)
3) gene type (node shape: hexagons are kinases, arrows are ligands, diamonds are receptors, circles for everything else)
4) mutation status...
2018 Mar 21
0
Error in GDCprepare step of TCGAbiolinks
Dear Sir/ma'am,
I'm using R-3.4.4 and TCGAbiolinks package for the analysis of GDC data.
Till today i have reintalled R and R studio for 5 times but one error comes
when i analyze the GDC data at the step GDCprepare. the data i am using is
not a legacy data of GDC data portal.
I think the problem is with my Laptop only because i have run t...