User: Sucheta Tripathy

Reputation:
170
Status:
Trusted
Location:
Last seen:
10 years, 9 months ago
Joined:
12 years, 12 months ago
Email:
s******@vbi.vt.edu

Posts by Sucheta Tripathy

<prev • 17 results • page 1 of 2 • next >
0
votes
1
answer
451
views
1
answer
simpleaffy segmentation fault
... Dear List, I am using simpleaffy's detection.p.val method to get the P values of my arrays. When I set tau value 10^-1 and 10^-2, I get segmentation fault.For Tau val ues less than 10^-3 onwards it works fine. Any pointer on this will be very helpful. many thanks Sucheta Following is my source c ...
survival probe genefilter affy affyio written 10.8 years ago by Sucheta Tripathy170 • updated 2.4 years ago by vlagani0
0
votes
1
answer
207
views
1
answer
variation in output -using gcrma: bg correction
... Dear Group when I run background(using GCRMA) correction for chips: "10_1331.1I.R208L.CEL" "9_C101.1F.R9F2L.CEL" and for chips "10_1195.1E.R119U.CEL" "9_C101.1F.R9F2L.CEL" keeping 9_C101.1F.R9F2L.CEL as constant, For both the runs I get slightly different outputs for chip 9_C101.1F.R9F2L.CEL ( ...
written 10.9 years ago by Sucheta Tripathy170 • updated 10.9 years ago by James W. MacDonald44k
0
votes
1
answers
237
views
1
answers
Answer: A: gcrma background correction-saving output
... Thanks Jenny, It solved my long term problem. I get the expected output!! Best Regards. Sucheta On Fri, December 8, 2006 12:56 pm, Jenny Drnevich wrote: > Hi Sucheta, > > > 'exprs()' pulls out ALL of the probe-level values, even for MM probes and > the gridding probes around the ...
written 10.9 years ago by Sucheta Tripathy170
0
votes
1
answers
324
views
1
answers
Comment: C: gcrma background correction
... Thanks a lot Anbarasu!! It does work. Just wanted to make sure if any values change in this conversion process? My output look little srange though. Anyway, thanks a lot. Sucheta On Fri, December 8, 2006 3:55 am, Lourdusamy A Anbarasu wrote: > Hi, > > > You may need to use eSet objec ...
written 10.9 years ago by Sucheta Tripathy170
0
votes
1
answers
324
views
1
answers
Comment: C: gcrma background correction
... Dear List, Thanks to all who responded to my earlier question. While I can get going with reading multiple CEL files at a time for background correction, I would like to save the outputs of each CEL file as a separate text file. While I tried something like this to have the outputs as separate colu ...
written 10.9 years ago by Sucheta Tripathy170
0
votes
1
answer
324
views
1
answer
gcrma background correction
... Hi Jean, List, Finally I managed to make the script library(affy) library(gcrma) affinfo=compute.affinities("soybean") myDat <-ReadAffy() sessionInfo() tmp1=bg.adjust.gcrma(myDat,optical.correct=T,affinity.info=affinfo) run in my machine. The only thing I have noticed was it works with 2 chips ...
cdf gcrma matchprobes written 10.9 years ago by Sucheta Tripathy170 • updated 10.9 years ago by Kasper Daniel Hansen6.3k
0
votes
1
answers
244
views
1
answers
Comment: C: trouble with gcrma: bgcorrection
... Hi Jean, Thanks for running it in your machine. I tried running the same thing in another machine with freshly installed R with bioconductor and got the same error as before. the only difference I see is you have gcrma 2.7.0 while mine is 2.6.0. Will this be the possible cause? I looked at the dis ...
written 10.9 years ago by Sucheta Tripathy170
0
votes
1
answer
244
views
1
answer
trouble with gcrma: bgcorrection
... Dear List, I still have problem computing background correction with gcrma using the following simpler code with soybean chip. library(affy) library(gcrma) myDat<-ReadAffy() myBG <- bg.adjust.gcrma(myDat) My error message is: ------------------- Adjusting for optical effect.Done. Computin ...
cdf gcrma written 10.9 years ago by Sucheta Tripathy170 • updated 10.9 years ago by Zhijin Jean Wu200
0
votes
1
answers
362
views
1
answers
Comment: C: Trouble with gcrma background correction
... Hi Herve, Group, Thanks for your response. As suggested by you, I have installed R version 2.4.0 with bioconductor 1.9. I recreated the cdf environment and computed affinity data. I still get the same error: ============================ Error in model.frame(formula, rownames, variables, varnames, ...
written 10.9 years ago by Sucheta Tripathy170
0
votes
1
answer
362
views
1
answer
Trouble with gcrma background correction
... Dear Group, (Sorry for the repost- The earlier one could not get through) I am stuck with this problem for quite some time. I have been searching for an answer to this, but could not quite get a hold of it. Any help in this will be greatly appreciated. I am using R version 2.3.1 and bioconductor ...
gcrma written 10.9 years ago by Sucheta Tripathy170 • updated 10.9 years ago by Hervé Pagès ♦♦ 12k

Latest awards to Sucheta Tripathy

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 192 users visited in the last hour