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regression
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0
votes
10
replies
2.4k
views
assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray
Annotation
GO
Network
Regression
Survival
Infrastructure
Escherichia coli
ROC
11.0 years ago
Julie Zhu
★ 4.3k
11
votes
3
replies
1.7k
views
Fit a multinomial to RNA-seq count data
voom
limma
glm
multinomial
regression
updated 7.7 years ago by
Robert Castelo
★ 3.1k • written 7.7 years ago by
rubi
▴ 110
0
votes
7
replies
1.4k
views
M vs A plot
Microarray
Normalization
Regression
Cancer
marray
Microarray
Normalization
Regression
updated 20.1 years ago by
Naomi Altman
★ 6.0k • written 20.1 years ago by
Richard Friedman
★ 2.0k
0
votes
4
replies
2.1k
views
How to create nested data frames
Regression
Regression
16.4 years ago
Ana Conesa
▴ 130
0
votes
2
replies
1.0k
views
Drosophila GeneChip analysis
Regression
Regression
updated 19.9 years ago by
Arne.Muller@aventis.com
▴ 620 • written 19.9 years ago by
Paul Mack
▴ 30
1
vote
3
replies
2.1k
views
limma report logFC confidence interval?
Regression
limma
Regression
limma
updated 2.8 years ago by
Gordon Smyth
50k • written 13.2 years ago by
Segal, Corrinne
▴ 40
0
votes
3
replies
1.3k
views
GCRMA: feature request
GO
Regression
probe
gcrma
frma
GO
Regression
probe
gcrma
frma
updated 13.2 years ago by
Björn Usadel
▴ 250 • written 13.2 years ago by
Guido Hooiveld
★ 3.9k
0
votes
7
replies
1.7k
views
affy code archeology: expresso behavior for liwong/invariantset
Regression
gcrma
Regression
gcrma
updated 11.2 years ago by
James W. MacDonald
65k • written 11.2 years ago by
Guest User
★ 13k
2
votes
23
replies
3.4k
views
Coping with a label/class imbalance in DESeq2
deseq2
rnaseq
r
regression
updated 7.5 years ago by
Michael Love
41k • written 7.5 years ago by
bkellman
• 0
0
votes
2
replies
3.5k
views
multtest and Cox regression
Regression
multtest
Regression
multtest
updated 19.0 years ago by
Benjamin Haibe-Kains
▴ 10 • written 19.0 years ago by
Benjamin Haibe-Kains
▴ 140
0
votes
5
replies
3.0k
views
Finding genes with significant linear regression or trend
Microarray
Regression
Cancer
limma
DOSE
Microarray
Regression
Cancer
limma
DOSE
updated 15.9 years ago by
Ana Conesa
▴ 340 • written 15.9 years ago by
Daniel Brewer
★ 1.9k
0
votes
5
replies
1.2k
views
limma question: direct two-color design & modeling individual subject effects
SystemsBiology
Regression
probe
limma
SystemsBiology
Regression
probe
limma
updated 16.9 years ago by
Paul Shannon
★ 1.1k • written 16.9 years ago by
Gordon Smyth
50k
2
votes
5
replies
15k
views
Limma design and contrast matrix question.
Microarray
Regression
limma
Microarray
Regression
limma
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Matthew Thornton
▴ 350
0
votes
5
replies
1.1k
views
IRanges causes bug in complete.cases
Regression
IRanges
Regression
IRanges
updated 14.3 years ago by
Michael Lawrence
★ 11k • written 14.3 years ago by
Kasper Daniel Hansen
★ 6.5k
1
vote
2
replies
3.4k
views
Kernel Ridge Regression in R for Drug-Target Interaction
regression
kernel
ridge
r
updated 7.5 years ago by
Guido Kraemer
• 0 • written 7.9 years ago by
ረ
• 0
0
votes
1
reply
1.5k
views
Choosing the kernel for SVM (regression) using rminer package
Regression
Regression
updated 10.0 years ago by
Steve Lianoglou
★ 13k • written 10.0 years ago by
Guest User
★ 13k
0
votes
1
reply
1.1k
views
question about limma fit differences?
Regression
limma
Regression
limma
updated 20.2 years ago by
Gordon Smyth
50k • written 20.2 years ago by
Simon Melov
▴ 20
0
votes
2
replies
2.0k
views
UCSC data anomaly in 50638 transcript(s): the cds cumulative length is
Genetics
GO
Regression
Cancer
TranscriptDb
Genetics
GO
Regression
Cancer
TranscriptDb
updated 9.8 years ago by
Tarca, Adi
▴ 570 • written 9.8 years ago by
Hervé Pagès
16k
0
votes
4
replies
2.5k
views
DESeq2 high fold change values for comparison of samples with zero counts
Regression
DESeq
DESeq2
Regression
DESeq
DESeq2
updated 10.1 years ago by
Michael Love
41k • written 10.1 years ago by
Noa Henig
▴ 60
0
votes
1
reply
1.3k
views
Bioconductor 2.1 is released
SNP
Microarray
SAGE
Annotation
Bayesian
Regression
GUI
CGH
hgu95av2
graph
Rgraphviz
SNP
16.5 years ago
Hervé Pagès
16k
0
votes
1
reply
1.5k
views
Support vector regression
Classification
Regression
Classification
Regression
updated 10.0 years ago by
Steve Lianoglou
★ 13k • written 10.0 years ago by
Guest User
★ 13k
0
votes
1
reply
977
views
GWASTools: quasi-/perfect linear separation
Regression
updated 9.6 years ago by
Stephanie M. Gogarten
▴ 870 • written 9.6 years ago by
Guest User
★ 13k
0
votes
2
replies
4.1k
views
edgeR choose the best model of GLM
Regression
edgeR
Regression
edgeR
updated 11.1 years ago by
Gordon Smyth
50k • written 11.1 years ago by
Eszter Ari
▴ 40
0
votes
1
reply
1.6k
views
[MEDIPS] mergeFrames: `Error in rbind(output, cbind(chromosomes[i], new_start, new_stop)) `
Coverage
Regression
edgeR
MEDIPS
Coverage
Regression
edgeR
MEDIPS
updated 10.2 years ago by
Matthias Lienhard
▴ 240 • written 10.2 years ago by
Pierre Lindenbaum
▴ 10
0
votes
1
reply
690
views
mean versus linear model?
Regression
limma
Regression
limma
updated 20.2 years ago by
Naomi Altman
★ 6.0k • written 20.2 years ago by
Simon Melov
▴ 340
0
votes
3
replies
8.8k
views
ggplot2 error
Regression
Regression
10.2 years ago
Alyaa Mahmoud
▴ 440
0
votes
3
replies
1.1k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE
Regression
edgeR
BRAIN
SAGE
Regression
edgeR
BRAIN
updated 11.7 years ago by
Martin Morgan
25k • written 11.7 years ago by
Gordon Smyth
50k
0
votes
1
reply
2.1k
views
Dose-Response: Regressiion and ANOVA
Regression
DOSE
Regression
DOSE
updated 19.2 years ago by
Liaw, Andy
▴ 360 • written 19.2 years ago by
Arne.Muller@aventis.com
▴ 620
0
votes
3
replies
3.6k
views
lower.limits and upper.limits in glmnet
Regression
Regression
updated 10.4 years ago by
Yue Li
▴ 60 • written 10.4 years ago by
Yue Li
▴ 370
8
votes
3
replies
6.8k
views
Removing batch effects with sva and combat using the sva package
Regression
limma
sva
Regression
limma
sva
updated 12.3 years ago by
Andrew Teschendorff
▴ 60 • written 12.3 years ago by
Jeff Leek
▴ 650
0
votes
1
reply
1.8k
views
maSigPro and "subscript out of bounds"
Normalization
Regression
maSigPro
Normalization
Regression
maSigPro
updated 12.8 years ago by
Andrea Grilli
▴ 240 • written 12.8 years ago by
Valerie Obenchain
★ 6.8k
1
vote
1
reply
7.1k
views
[LIMMA]lmFit with continuous predictor
Regression
limma
Regression
limma
updated 11.7 years ago by
Belinda Phipson
▴ 130 • written 11.7 years ago by
yao chen
▴ 210
2
votes
2
replies
2.2k
views
[limma] [Rfit] [samr] Gene expression distribution using lmFit and eBayes
Microarray
Regression
Microarray
Regression
updated 10.4 years ago by
Gordon Smyth
50k • written 10.4 years ago by
Jérôme Lane
▴ 30
0
votes
1
reply
970
views
predict an ordinal response variable from high-throughput gene expression data
Microarray
Regression
Microarray
Regression
updated 14.5 years ago by
John Stevens
▴ 30 • written 14.5 years ago by
shirley zhang
★ 1.0k
0
votes
2
replies
881
views
Filter before? Filter after? With maanova
Regression
probe
maanova
Regression
probe
maanova
updated 14.7 years ago by
rgentleman
★ 5.5k • written 14.7 years ago by
Loren Engrav
★ 1.0k
0
votes
1
reply
1.1k
views
Huber et al: Variance stabilization ...
Microarray
Regression
Microarray
Regression
updated 21.1 years ago by
Wolfgang Huber
★ 13k • written 21.1 years ago by
"Hüsing, Johannes"
▴ 60
0
votes
2
replies
1.8k
views
how to create an affybatch
Normalization
Regression
hgu133a
probe
Normalization
Regression
hgu133a
probe
14.7 years ago
Venkat Sundar
▴ 30
0
votes
1
reply
1.6k
views
paired microarray samples
Regression
limma
beadarray
Regression
limma
beadarray
updated 14.5 years ago by
Naomi Altman
★ 6.0k • written 14.5 years ago by
Chris Fjell
▴ 60
0
votes
7
replies
1.3k
views
IRanges: interaction with model fitting
Regression
IRanges
Regression
IRanges
updated 13.6 years ago by
Martin Morgan
25k • written 13.6 years ago by
Kasper Daniel Hansen
★ 6.5k
0
votes
2
replies
879
views
missing values in limma/contrasts.fit
Microarray
Regression
probe
limma
Microarray
Regression
probe
limma
updated 14.3 years ago by
Albyn Jones
▴ 70 • written 14.3 years ago by
Gordon Smyth
50k
0
votes
2
replies
787
views
Newbe question
Regression
Regression
12.7 years ago
SimonNoël
▴ 450
0
votes
6
replies
1.4k
views
SNPcounts error in SNPlocs.Hsapiens.dbSNP.20110815_0.99.3 (i.e., my attempt to update SNPlocs to dbSNP build 134)
Regression
SNPlocs
Biostrings
Regression
SNPlocs
Biostrings
updated 12.5 years ago by
Vincent J. Carey, Jr.
6.7k • written 12.5 years ago by
Tim Triche
★ 4.2k
0
votes
2
replies
1.0k
views
Maanova & createdata
Regression
maanova
Regression
maanova
updated 15.4 years ago by
Marcelo Laia
▴ 450 • written 15.4 years ago by
Loren Engrav
★ 1.0k
0
votes
1
reply
972
views
[R] lowess regression
Regression
Regression
updated 11.6 years ago by
S Ellison
▴ 10 • written 11.6 years ago by
Bogdan
▴ 670
0
votes
1
reply
2.3k
views
forward conditional Cox and logistic regression
Genetics
Regression
Survival
Genetics
Regression
Survival
updated 15.3 years ago by
Laurent Gautier
★ 2.3k • written 15.3 years ago by
Katleen De Preter
▴ 130
0
votes
1
reply
948
views
batch effects and VSN
Normalization
Regression
vsn
limma
oligo
Normalization
Regression
vsn
limma
oligo
updated 16.5 years ago by
Wolfgang Huber
★ 13k • written 16.5 years ago by
Hans-Ulrich Klein
▴ 330
0
votes
1
reply
722
views
Binary regression trees
Regression
Regression
updated 18.9 years ago by
Arne.Muller@sanofi-aventis.com
▴ 210 • written 18.9 years ago by
Boris Umylny
▴ 10
0
votes
2
replies
911
views
Does old workspace work?
Regression
probe
gcrma
PROcess
maanova
Regression
probe
gcrma
PROcess
maanova
updated 15.4 years ago by
Kasper Daniel Hansen
★ 6.5k • written 15.4 years ago by
Loren Engrav
★ 1.0k
0
votes
2
replies
1.8k
views
[MEDIPS] Error in 1:max_signal_index : argument of length 0 - what does mean?
Preprocessing
Regression
MEDIPS
Preprocessing
Regression
MEDIPS
updated 10.2 years ago by
Lukas Chavez
▴ 570 • written 10.2 years ago by
김종환
▴ 20
0
votes
1
reply
1.3k
views
Talk & Poster - Final Call - qPCR 2009 Event
SNP
qPCR
Normalization
Visualization
Regression
Cancer
probe
PROcess
microRNA
SNP
qPCR
15.3 years ago
qPCR Platform - the reference in real-t…
▴ 170
50 results • Page
1 of 1
Recent ...
Replies
Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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