Showing : genespring • reset
2
votes
1
reply
3.5k
views
RNA-seq Differential expression using 3 groups
rnaseq anova deseq2 edger genespring
8.8 years ago BM • 0
0
votes
2
replies
2.2k
views
First time use of limma for two-color agilent array analysis
qPCR limma GeneSpring qPCR limma GeneSpring
updated 10.2 years ago by 65k • written 10.2 years ago by ▴ 30
0
votes
4
replies
1.7k
views
Should AgiMicroRna and GeneSpring quantile normalisation be the same ?
Normalization GeneSpring microRNA AgiMicroRna Normalization GeneSpring microRNA AgiMicroRna
updated 11.7 years ago by ★ 1.3k • written 11.7 years ago by ▴ 30
0
votes
0
replies
960
views
Limma package for Agilent microarray Image Analysis
limma GeneSpring limma GeneSpring
12.2 years ago Karthik K N ▴ 200
0
votes
0
replies
1.1k
views
miRNA array normalization - RMA vs Genespring comparison
miRNA Normalization GeneSpring miRNA Normalization GeneSpring
12.3 years ago Andrea Grilli ▴ 240
0
votes
0
replies
1.0k
views
Difference between LIMMA and Genespring
Microarray Genetics limma GeneSpring Microarray Genetics limma GeneSpring
12.4 years ago Gordon Smyth 50k
0
votes
1
reply
1.4k
views
Difference between LIMMA and Genespring
limma GeneSpring limma GeneSpring
updated 12.4 years ago by ▴ 230 • written 12.4 years ago by ▴ 10
0
votes
1
reply
3.0k
views
2 way anova in Bioconductor
Microarray GO genefilter limma GeneSpring ABarray preprocessCore arrayQualityMetrics BRAIN
updated 12.8 years ago by ▴ 210 • written 12.8 years ago by ▴ 110
0
votes
6
replies
1.9k
views
2 way anova in Bioconductor
GO genefilter limma GeneSpring ABarray preprocessCore arrayQualityMetrics GO genefilter
updated 12.9 years ago by ★ 2.0k • written 12.9 years ago by ▴ 110
0
votes
0
replies
840
views
agilent shRNA library
Microarray GeneSpring Microarray GeneSpring
13.6 years ago Giusy Della Gatta ▴ 50
0
votes
4
replies
1.2k
views
How to cope with arrays hybridized at significantly different time.
GeneSpring GeneSpring
updated 15.2 years ago by ★ 13k • written 15.2 years ago by ▴ 40
0
votes
0
replies
597
views
export toptables into Genespring
limma GeneSpring limma GeneSpring
15.5 years ago Pemmasani, Kalyani ▴ 10
0
votes
1
reply
1.9k
views
what is the best baseline transformation method before clustering
GO Clustering probe affy gcrma GeneSpring GO Clustering probe affy gcrma GeneSpring
updated 15.6 years ago by 21k • written 15.6 years ago by ▴ 270
0
votes
3
replies
939
views
Missing ProbeSets in Affymetrix MoGene 1.0 ST chips
Annotation cdf GeneSpring Annotation cdf GeneSpring
updated 15.7 years ago by 65k • written 15.7 years ago by ▴ 910
0
votes
2
replies
1.1k
views
Agilent MAGE-ML
RMAGEML GeneSpring PROcess RMAGEML GeneSpring PROcess
updated 15.7 years ago by 25k • written 15.7 years ago by ▴ 10
0
votes
7
replies
15k
views
How to adjust the Heatmap.2 color key
Microarray GeneSpring Microarray GeneSpring
15.8 years ago Martin Bonke ▴ 40
0
votes
0
replies
1.5k
views
Cutoff to use for IQR filtering in genefilter
genefilter affy limma GeneSpring affylmGUI GLAD SIM genefilter affy limma GeneSpring
15.9 years ago Mark Cowley ▴ 400
0
votes
1
reply
999
views
How to calculate the values lige GeneSpring from the raw intensities (Agilent)
GeneSpring GeneSpring
updated 15.9 years ago by ▴ 400 • written 15.9 years ago by ▴ 30
0
votes
2
replies
1.1k
views
Do my Limma results look "normal"?
Microarray Cancer Breast limma GeneSpring Microarray Cancer Breast limma GeneSpring
updated 15.9 years ago by ★ 1.3k • written 15.9 years ago by 50k
0
votes
2
replies
1.1k
views
Do my Limma results look "normal"?
Microarray Cancer Breast limma GeneSpring Microarray Cancer Breast limma GeneSpring
updated 15.9 years ago by ★ 5.5k • written 15.9 years ago by ★ 1.3k
0
votes
3
replies
1.2k
views
limma - Considering Batch Effect
limma GeneSpring limma GeneSpring
updated 16.8 years ago by 65k • written 16.8 years ago by ▴ 120
0
votes
1
reply
712
views
Interface to BASE microarray data
Microarray Cancer GeneSpring Microarray Cancer GeneSpring
updated 17.8 years ago by ★ 2.4k • written 17.8 years ago by ★ 1.9k
0
votes
1
reply
1.0k
views
MLInterfaces
GeneSpring MLInterfaces GeneSpring MLInterfaces
updated 18.2 years ago by ★ 1.0k • written 18.2 years ago by ▴ 60
0
votes
3
replies
1.1k
views
Rocke-Lorenzato model or Global Error Model in Bioconductor
GeneSpring GeneSpring
updated 18.4 years ago by ▴ 190 • written 18.4 years ago by ▴ 270
0
votes
2
replies
1.2k
views
limma Normalization question
Genetics Normalization limma GeneSpring limmaGUI Genetics Normalization limma GeneSpring
18.5 years ago Gordon Smyth 50k
0
votes
0
replies
965
views
limma Normalization question
Genetics Normalization limma GeneSpring limmaGUI Genetics Normalization limma GeneSpring
18.5 years ago Cecilia McGregor ▴ 110
0
votes
2
replies
1.2k
views
GeneSpring can call R functions?
GO GeneSpring safe GO GeneSpring safe
updated 19.0 years ago by ★ 1.1k • written 19.0 years ago by ▴ 250
0
votes
0
replies
934
views
JOB: Research Associate at Texas A&M
Clustering GeneSpring Clustering GeneSpring
19.2 years ago Marina Vannucci ▴ 20
0
votes
0
replies
708
views
affylmGUI - feedback, questions
gcrma GeneSpring affylmGUI gcrma GeneSpring affylmGUI
19.2 years ago SteffenMöller ▴ 30
0
votes
0
replies
736
views
Could limma be as good as GeneSpring in nomalization?
Genetics limma GeneSpring Genetics limma GeneSpring
19.5 years ago donghu@itsa.ucsf.edu ▴ 70
0
votes
0
replies
898
views
Could limma be as good as GeneSpring in normalization?
Microarray Genetics limma GeneSpring Microarray Genetics limma GeneSpring
19.5 years ago Elizabeth Brooke-Powell ▴ 160
0
votes
0
replies
691
views
Error encountered while using RMA
Normalization GeneSpring Normalization GeneSpring
19.5 years ago Madeleine Gross ▴ 10
0
votes
0
replies
793
views
What to do about the missing probe sequences for HG_U95A?
Normalization GO probe affy GeneSpring Normalization GO probe affy GeneSpring
19.6 years ago Thon de Boer ▴ 10
0
votes
2
replies
1.1k
views
som - can it divide the samples into clusters
GeneSpring GeneSpring
19.7 years ago Liu, Xin ▴ 120
0
votes
0
replies
881
views
GeneSpring package usage
GeneSpring GeneSpring
19.8 years ago marchiem@libero.it ▴ 150
0
votes
1
reply
756
views
maPrintTip confusion
GO GeneSpring ASSIGN GO GeneSpring ASSIGN
updated 19.9 years ago by ▴ 920 • written 19.9 years ago by ▴ 10
0
votes
0
replies
696
views
Normalization with common reference
Normalization Cancer vsn GeneSpring Normalization Cancer vsn GeneSpring
19.9 years ago Wolfgang Huber ★ 13k
0
votes
0
replies
1.1k
views
median polish vs mas/PLIER info
Microarray Normalization Cancer probe affy GeneSpring PROcess plier Microarray Cancer
20.0 years ago Anthony Bosco ▴ 500
0
votes
0
replies
1.2k
views
MAS vs gcrma, rma and Li-Wong method in Affy package for TC study
Normalization Clustering affy gcrma GeneSpring Normalization Clustering affy gcrma
20.1 years ago Lizhe Xu ▴ 210
0
votes
2
replies
1.4k
views
warning messages in gcrma
Microarray Normalization Cancer moe430a moe430b cdf probe affy gcrma siggenes GeneSpring
updated 20.1 years ago by 65k • written 20.2 years ago by ▴ 210
0
votes
1
reply
916
views
questions about Affy package from new user: onemore question
Microarray Normalization Cancer affy GeneSpring Microarray Normalization Cancer affy
updated 20.2 years ago by 65k • written 20.2 years ago by ▴ 210
0
votes
0
replies
897
views
FW: questions about Affy package from new user: onemore question
Microarray Normalization Cancer affy GeneSpring Microarray Normalization Cancer affy
20.2 years ago Lizhe Xu ▴ 210
0
votes
1
reply
726
views
questions about Affy package from new user: one more question
Microarray Normalization Cancer GeneSpring Microarray Normalization Cancer GeneSpring
updated 20.2 years ago by ★ 1.8k • written 20.2 years ago by 65k
0
votes
0
replies
749
views
very small fold change from RMA data
affy GeneSpring affy GeneSpring
20.5 years ago Qiang Li ▴ 10
0
votes
1
reply
1.1k
views
very small fold change from RMA data
affy GeneSpring affy GeneSpring
updated 20.6 years ago by ★ 13k • written 20.6 years ago by ▴ 40
0
votes
1
reply
1.1k
views
RMA and GeneSpring?
Normalization affy GeneSpring Normalization affy GeneSpring
updated 20.6 years ago by ▴ 130 • written 20.6 years ago by ▴ 40
0
votes
0
replies
665
views
Getting unmodified Affy-Data via R+ and the Affy package...
GeneSpring GeneSpring
21.1 years ago Joern Wessels ▴ 20
0
votes
2
replies
999
views
RMA results
affy GeneSpring affy GeneSpring
updated 21.3 years ago by ▴ 70 • written 21.3 years ago by ▴ 100
0
votes
4
replies
989
views
R and GeneSpring
GeneSpring GeneSpring
updated 22.0 years ago by ▴ 530 • written 22.0 years ago by ▴ 20
49 results • Page 1 of 1
Recent ...
Replies
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
Awards • All
Popular Question to Gordon Smyth 50k
Popular Question to Zainab • 0
Popular Question to Theo ▴ 10
Popular Question to gene_bioconductor ▴ 10
Popular Question to rohitsatyam102 ▴ 20
Locations • All
WEHI, Melbourne, Australia, 1 minute ago
The city by the bay, 5 minutes ago
Sweden, 6 minutes ago
United States, 18 minutes ago
UPF, Barcelona, Spain, 28 minutes ago
Traffic: 512 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6