User: daniela.marconi@libero.it

Reputation:
100
Status:
New User
Location:
Last seen:
13 years, 2 months ago
Joined:
15 years, 4 months ago
Email:
d**************@libero.it

Posts by daniela.marconi@libero.it

<prev • 10 results • page 1 of 1 • next >
0
votes
0
answers
721
views
0
answers
svm rfe
... Dear BioC users, Do you know if already exists any implementation of svm-rfe in R? Thank you in advance Daniela Marconi PhD Student, Physics department Bologna University ...
written 13.2 years ago by daniela.marconi@libero.it100
0
votes
0
answers
467
views
0
answers
LIMMA help: how to choose correct weight for flagged spots??
... Hi limma users!!! Does anyone know why and how a different weight value for flagged spot vastly influence significance levels(for both p-value and log odds) and order in topTable() list? I flagged spot with a self-made script for genePix(taking into acconunt some quality parameter like Signal to no ...
limma written 13.8 years ago by daniela.marconi@libero.it100
0
votes
0
answers
367
views
0
answers
limma,weights & fit
... Hi limma users! I have two quick questions 1)I know that setting wt.fun=wtflags(0) in read.maimages() exclude flagged spots from normalization. But does it exclude flagged spots also from the fitting of linear model in lmFit()? 2)Is it possible that setting a different value (for example like wt.f ...
normalization limma written 13.8 years ago by daniela.marconi@libero.it100
0
votes
1
answer
632
views
1
answer
LIMMA, SAM & clustering
... Hi, I have analyzed a data set with 2 different classes UM and M(with subcklasses M1 and M2) . I have fitted the linear model with limma for the coefficients UM, M1 and M2 and I have compared UM vs (M1+M2).I found a significant change (adjuste p-value<0.0001 and B>2) for 236 genes I did the a ...
visualization clustering limma written 13.9 years ago by daniela.marconi@libero.it100 • updated 13.9 years ago by James W. MacDonald52k
0
votes
0
answers
779
views
0
answers
visualizing limma results
... Hi to everybody I have used limma to find out genes with different expression with high level of confidence in a Multiclass comaparison. Now I need to visualize by a heatmap our results. Only for visualization pourposes using functions heatmap and heatmap.2 I 've tried to separete different class ...
visualization limma written 13.9 years ago by daniela.marconi@libero.it100
0
votes
0
answers
613
views
0
answers
LIMMA:nestedF
... Hi, I have a question about decideTests with method "nestedF". As I saw, this function can't handle with NA values! How can I realize a nestedF classification with a fit with NA values? I found two solutions by myself. But I'm not sure about!!! 1) I've tryed to list the function decideTests and ...
classification written 14.0 years ago by daniela.marconi@libero.it100
0
votes
0
answers
387
views
0
answers
Fwd:decideTests nestedF
... Hi, I'm using limma to analyze an Operon Oligo data set. I would try to use in down stream part of the analysis a nestedF approach. The problem is that using > results<-decideTest(fit2,method="nestedF",adjust.method="fdr") I had this error message Errore: nestedF method can't handle NA p-value ...
limma oligo written 14.0 years ago by daniela.marconi@libero.it100
0
votes
0
answers
207
views
0
answers
decideTests nestedF
... An embedded and charset-unspecified text was scrubbed... Name: not available Url: https://stat.ethz.ch/pipermail/bioconductor/attachments/20051206/ 23ca6af3/attachment.pl ...
written 14.0 years ago by daniela.marconi@libero.it100
0
votes
0
answers
407
views
0
answers
Re:limma
... Hi I'm using limma for an affymetrix dataset. For summarize which is the most relavant differential expressed genes I use classifyTestsF() and I extract up-regulated and down-regulated genes. At the same time i look at the results of the fit with topTable() (sorted by B). But the genes are differe ...
limma written 15.4 years ago by daniela.marconi@libero.it100
0
votes
5
answers
534
views
5
answers
Answer: A: limma
... Hi I'm using limma for an affymetrix dataset. For summarize which is the most relavant differential expressed genes I use classifyTestsF() and I extract up-regulated and down-regulated genes. At the same time i look at the results of the fit with topTable() (sorted by B). But the genes are not the ...
written 15.4 years ago by daniela.marconi@libero.it100

Latest awards to daniela.marconi@libero.it

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 16.09
Traffic: 177 users visited in the last hour