Displaying 11 results from an estimated 11 matches for "1007_s_at".
2010 Apr 29
1
merged files
...rtain criteria, i.e.
it combines data based on matching geneID and exons.
i have used the merge option, but it does not give me the desired outcome.
merged.txt shows the result i would like.
*File1. txt*
**
AffyProbe ProbeType Flag GeneSymbol GeneID Exons Chrom Strand Affytart
AffyEnd 1 1007_s_at:1105:483 0 0 DDR1 780 21 6 + 30975403 30975427 2
1007_s_at:1119:177 0 0 DDR1 780 21 6 + 30975549 30975573 3
1007_s_at:1136:469 0 0 DDR1 780 21 6 + 30975766 30975790 4 1007_s_at:192:205
0 0 DDR1 780 21 6 + 30975523 30975547 5 1007_s_at:474:1161 0 0 DDR1 780 21 6
+ 30975745 30975769 6 1007_s_at:504:9...
2010 Apr 29
0
merge on criteria
...rtain criteria, i.e.
it combines data based on matching geneID and exons.
i have used the merge option, but it does not give me the desired outcome.
merged.txt shows the result i would like.
*File1. txt*
**
AffyProbe ProbeType Flag GeneSymbol GeneID Exons Chrom Strand Affytart
AffyEnd 1 1007_s_at:1105:483 0 0 DDR1 780 21 6 + 30975403 30975427 2
1007_s_at:1119:177 0 0 DDR1 780 21 6 + 30975549 30975573 3
1007_s_at:1136:469 0 0 DDR1 780 21 6 + 30975766 30975790 4 1007_s_at:192:205
0 0 DDR1 780 21 6 + 30975523 30975547 5 1007_s_at:474:1161 0 0 DDR1 780 21 6
+ 30975745 30975769 6 1007_s_at:504:9...
2008 Jun 16
2
Creating a Hash from Data.Frame
Hi,
I have the following data frame:
> print(mydatframe)
__DATAFRAME__
V1 V2 V3
1 1007_s_at DDR1 discoidin domain receptor tyrosine kinase 1
2 1053_at RFC2 replication factor C (activator 1) 2, 40kDa
3 117_at HSPA6 heat shock 70kDa protein 6 (HSP70B')
__END__
Is there a way to create a hash with
V2 as Key and V3 as its value?
- Gundala Viswanath
Jakarta - Indonesia
2011 Oct 26
3
FOR loop with statistical analysis for microarray data
...i started recently using R and i found myself stuck when i try to
analyze microarray data.
i use the "affy" package to obtain the intensities of the probes, i
have two CTRs and two treated.
HG.U133A.Experiment1.CEL HG.U133A.Experiment2.CEL
HG.U133A_Control1.CEL HG.U133A_Control2.CEL
1007_s_at 2156.23115 467.75615
364.60615 362.11865
1053_at 88.76368 93.58436
438.49365 357.75615
117_at 144.00743 101.26120
95.11117 107.01623
121_at 551.3...
2008 Jun 16
1
Separator with " | " for read.table
Hi,
I have the following data file to be parsed and captured as a data frame:
__DATA__
#GDS_ID GENE_NAME GENE_DESCRIPTION GENE_FUNCTION
1007_s_at | DDR1 | discoidin domain receptor tyrosine kinase 1 | protein-coding
1053_at | RFC2 | replication factor C (activator 1) 2, 40kDa | protein-coding
117_at | HSPA6 | heat shock 70kDa protein 6 (HSP70B') | protein-coding
__END__
In particular it is separated by " | " , namely - space,...
2010 May 03
1
how to name the column after converting a vector to a data frame
hell all:
I have a vector as follows:
> head(res)
1007_s_at.value 1053_at.value 117_at.value 121_at.value 1255_g_at.value
0.225801033 0.009747404 0.709517954 0.008825740 0.496859178
1294_at.value
0.005091231
after I convert the res into a data frame I got the following:
resx<- data.frame(res)
> head(resx)...
2008 Jun 24
1
Binding result of a function to a data frame
Hi,
I have the following function:
> kurtosis <-function(x) (mean((x-mean(x))^4))/(sd(x)^4) #x is a vector
and data
> print(mydata)
V1 V2 V3 V4 V5
1 1007_s_at DDR1 2865.1 2901.3 1978.3
2 1053_at RFC2 103.6 81.6 108.0
3 117_at HSPA6 222.0 222.5 306.2
4 121_at PAX8 2146.3 2457.2 1901.9
5 1255_g_at...
2011 Oct 24
2
C function is wrong under Windows 7
Dear mailing list,
I have a C function that gives me a wrong result when I run it under Windows
7.
This is the code under Linux (RHEL5):
> library(phenoTest)
> data(epheno)
> sign <- sample(featureNames(epheno))[1:20]
> score <- getFc(epheno)[,1]
> head(score)
1007_s_at 1053_at 117_at 121_at 1255_g_at 1294_at
-1.183019 1.113544 1.186186 -1.034779 -1.044456 -1.023471
> s <- which(names(score) %in% sign)
> es.c <- .Call('getEs',score,s,PACKAGE='phenoTest')
> head(es.c)
[1] -0.001020408 -0.002040816 -0.003061224 -0.004081633...
2008 Mar 08
1
Errors in in my code
...r in file(file, "r") : unable to open connection
In addition: Warning messages:
1: In file(file, "r") : only first element of 'description' argument used
2: In file(file, "r") :
cannot open file
'C:/PROGRA~1/R/R-26~1.2/library/annotationTools/data/c("1007_s_at",
"1053_at", "117_at", "121_at", "1255_g_at", "1294_at", "1316_at", "1320_at",
"1405_i_at", "1431_at", "1438_at", "1487_at", "1494_f_at", "1552256_a_at",
"1552...
2005 Jun 09
1
Help with SOM membership
...Thanks in advance,
Ken
>str(allt.som)
List of 16
$ data : num [1:8, 1:22277] 1167 1282 1561 1398 1581 ...
..- attr(*, "dimnames")=List of 2
.. ..$ : chr [1:8] "m577con" "m577exp" "m578con" "m578exp" ...
.. ..$ : chr [1:22277] "1007_s_at" "1053_at" "117_at" "121_at" ...
$ code : matrix [1:25, 1:22277] 1050 1222 1411 1504 1722 ...
..- attr(*, "class")= chr "matrix"
$ visual :`data.frame': 8 obs. of 3 variables:
..$ x : num [1:8] 0 1 3 2 3 4 2 1
..$ y...
2007 May 01
1
Possible problem with S4 dispatch
...h the desired method is not found.
What worries me in terms of my expectations of how to debug the
problem is that showMethods and selectMethod both find the method.
Here is an example browser session:
## Input 1, a character vector
Browse[1]> gN[1:3]
[1] "1005_at" "1007_s_at" "1008_f_at"
## Input 2, an object of class AtomicAnnMap (subclass of AnnMap)
Browse[1]> class(LLe)
[1] "AtomicAnnMap"
attr(,"package")
[1] "AnnotationDbi"
## See what selectMethod has to say (it finds the method I...