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genefilter
•
reset
10
votes
23
replies
13k
views
Macbook M1 install genefilter failed
DESeq2
m1
macbook
genefilter
2.7 years ago • updated 17 months ago
soda
▴ 80
9
votes
10
replies
2.1k
views
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
limma
microarray
genefilter
deseq2
4.8 years ago
Jurat Shahidin
▴ 80
7
votes
5
replies
2.0k
views
Adjusted P values
limma
genefilter
updated 9.4 years ago by
Gordon Smyth
50k • written 9.5 years ago by
kaushal Raj Chaudhary
▴ 10
6
votes
5
replies
14k
views
Installation of package DESeq2
deseq2
rcurl
annotate
genefilter
geneplotter
updated 7.3 years ago by
Martin Morgan
25k • written 7.3 years ago by
Rémi Willamme
▴ 10
6
votes
6
replies
1.8k
views
genefilter filtered out 60% of the original genes?
genefilter
edgeR
updated 8.0 years ago by
Nikos Ignatiadis
▴ 180 • written 8.0 years ago by
cafelumiere12
▴ 20
4
votes
4
replies
2.1k
views
Suggestions for non-specific filtering criteria with limma
limma
genefilter
updated 8.3 years ago by
Wolfgang Huber
★ 13k • written 8.4 years ago by
rvinisko
▴ 10
4
votes
4
replies
2.6k
views
DEXSeq and Independent filtering
dexseq
deseq2
genefilter
updated 8.4 years ago by
Wolfgang Huber
★ 13k • written 8.4 years ago by
Joseph Bundy
▴ 20
4
votes
4
replies
2.6k
views
Non-specific filtering methodogies for ExpressionSet in R/Bioconductor
genefilter
R
bioconductor
differential gene expression
updated 9.3 years ago by
Gordon Smyth
50k • written 9.3 years ago by
svlachavas
▴ 830
3
votes
5
replies
2.2k
views
Fail to install "AnnotationHub"
software error
annotation
genefilter
pd.hta.2.0
updated 7.5 years ago by
Martin Morgan
25k • written 7.5 years ago by
Lian Liu
▴ 20
3
votes
1
reply
1.1k
views
Is it valid to use only genes of interest before eBayes step in limma?
limma
genefilter
updated 7.8 years ago by
Aaron Lun
★ 28k • written 7.8 years ago by
minabashir
• 0
2
votes
4
replies
1.7k
views
filter.log in nsFilter function (package genefilter) gives null value
genefilter
updated 9.5 years ago by
James W. MacDonald
65k • written 9.5 years ago by
kaushal Raj Chaudhary
▴ 10
2
votes
2
replies
1.2k
views
I'm looking for a filtering method that it does't use genewise variances
genefilter
liimma
microarray
updated 8.3 years ago by
Wolfgang Huber
★ 13k • written 8.3 years ago by
Shamim Sarhadi
▴ 20
2
votes
12
replies
2.4k
views
I want to order genes in GO groups
gene ontology
genefilter
updated 8.6 years ago by
b.nota
▴ 360 • written 8.6 years ago by
kanacska
▴ 10
2
votes
7
replies
1.6k
views
why genefilter does not work for me ?
R
microarray
genefilter
9.2 years ago
Nemo
▴ 80
2
votes
1
reply
1.5k
views
Filtering array data with nsFilter
genefilter
nsFilter
updated 8.0 years ago by
Gordon Smyth
50k • written 8.0 years ago by
emarram1
• 0
1
vote
1
reply
2.0k
views
Removing probes with low variance across samples (Infinium 450k)
probe
genefilter
probe
genefilter
updated 12.2 years ago by
Tim Triche
★ 4.2k • written 12.2 years ago by
khadeeja ismail
▴ 400
1
vote
5
replies
1.1k
views
error when trying to apply the specific gene filter.
genefilter
6.8 years ago • updated 6.7 years ago
DataFanatic
▴ 10
1
vote
3
replies
602
views
DESeq: relaxing gene filtering thresholds increases mean-Sd correlation, but recovers many important genes
metaanalysis
meanSd
genefilter
DESeq2
10 months ago
Ndimensional
▴ 20
1
vote
4
replies
1.9k
views
cran check shows that genefilter is not available
genefilter
6.4 years ago
jinkaixiu
▴ 10
1
vote
4
replies
1.4k
views
Error in the package of "genefilter" "nsFilter"
genefilter
updated 7.5 years ago by
James W. MacDonald
65k • written 7.5 years ago by
Lian Liu
▴ 20
1
vote
3
replies
2.9k
views
DESeq2/genefilter compatibility with R 4.2.2
DESeq2
genefilter
17 months ago
Morgane
▴ 10
1
vote
1
reply
658
views
Weight Array Quality before of after applying variance filtering?
limma
arrays
genefilter
updated 21 months ago by
James W. MacDonald
65k • written 21 months ago by
jacorvar
▴ 40
1
vote
3
replies
9.0k
views
genefilter installation error
genefilter
genefilter
updated 9.7 years ago by
Cherif Ben Hamda
▴ 150 • written 9.7 years ago by
Subinoy Biswas
▴ 10
1
vote
2
replies
1.3k
views
removal of probes called "Absent"
probe
genefilter
probe
genefilter
updated 13.8 years ago by
Iain Gallagher
▴ 930 • written 13.8 years ago by
Hernando Martínez
▴ 100
1
vote
1
reply
2.0k
views
Rosetta Resolver-like error-weighted ANOVAs in Bioconductor
Microarray
genefilter
affy
Microarray
genefilter
affy
updated 10.1 years ago by
Ryan C. Thompson
★ 7.9k • written 10.1 years ago by
Ida Hatoum
▴ 10
1
vote
1
reply
1.5k
views
Error using nsFilter() Error in (function (classes, fdef, mtable) unable to find an inherited method for function columns for signature function
genefilter
8.0 years ago
Lucy
• 0
1
vote
3
replies
1.5k
views
Selecting genes that best separate between two groups
limma
genefilter
ttest
clustering
TPM
6.6 years ago
lirongrossmann
▴ 80
0
votes
0
replies
733
views
Failure to install genefilter, multtest and affy in RAqua on Mac OS X
genefilter
multtest
affy
genefilter
multtest
affy
20.5 years ago
Paul Dickinson
▴ 10
0
votes
4
replies
1.9k
views
installation problem
Ruuid
genefilter
rhdf5
multtest
affy
graph
Rgraphviz
RBGL
Ruuid
genefilter
rhdf5
affy
updated 20.5 years ago by
Vincent J. Carey, Jr.
6.7k • written 20.5 years ago by
Weiming Zhang
▴ 30
0
votes
0
replies
1.2k
views
Bioconductor 1.0
Microarray
Annotation
Normalization
Cancer
genefilter
geneplotter
multtest
ROC
Microarray
22.0 years ago
Anthony Rossini
▴ 530
0
votes
1
reply
1.0k
views
Biobase load failed
Biobase
genefilter
tkWidgets
Biobase
genefilter
tkWidgets
updated 20.5 years ago by
Vincent J. Carey, Jr.
6.7k • written 20.5 years ago by
Scott Norton
▴ 10
0
votes
2
replies
1.5k
views
Advice for analyzing Affy data
Cancer
genefilter
Cancer
genefilter
updated 20.6 years ago by
James W. MacDonald
65k • written 20.6 years ago by
Tan, MinHan
▴ 180
0
votes
0
replies
1.5k
views
peer review process/DATE CORRECTION
Biobase
annotate
edd
genefilter
geneplotter
rhdf5
multtest
ROC
tkWidgets
affy
AnnBuilder
22.0 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
2
replies
1.2k
views
simpleaffy and yeast2cdf problems
Survival
cdf
genefilter
affy
simpleaffy
Survival
cdf
genefilter
affy
simpleaffy
updated 17.3 years ago by
Alvord, Greg DMS [Contr]
▴ 160 • written 17.3 years ago by
Dan Swan
▴ 50
0
votes
3
replies
1.1k
views
Recent changes to Bioconductor packages
genefilter
affy
graph
Rgraphviz
limma
annaffy
genefilter
affy
graph
Rgraphviz
limma
20.6 years ago
madman@jimmy.harvard.edu
▴ 850
0
votes
0
replies
2.6k
views
Error: (subscript) logical subscript too long. Help, please?
Cancer
genefilter
Cancer
genefilter
20.8 years ago
Fátima Núñez
▴ 130
0
votes
0
replies
851
views
Error Installation for Genefilter
Biobase
genefilter
Biobase
genefilter
20.8 years ago
Lisa Devereaux
▴ 20
0
votes
3
replies
832
views
multtest dependencies
Survival
genefilter
multtest
reposTools
Survival
genefilter
multtest
reposTools
19.1 years ago
Francois Pepin
★ 1.3k
0
votes
1
reply
859
views
Golub example from Gentleman and Carey
Annotation
annotate
genefilter
Annotation
annotate
genefilter
updated 20.9 years ago by
Vincent J. Carey, Jr.
6.7k • written 20.9 years ago by
John E. Cornell, Ph.D.
▴ 150
0
votes
5
replies
1.6k
views
Importing CDF file for custom array using makecdfenv
Microarray
GO
Survival
Cancer
cdf
Biobase
annotate
genefilter
affy
graph
makecdfenv
GO
updated 17.5 years ago by
Sung-Chur Sim
▴ 20 • written 17.5 years ago by
Jenny Drnevich
★ 2.2k
0
votes
3
replies
3.3k
views
Installing genefilter
Microarray
genefilter
multtest
Microarray
genefilter
multtest
updated 19.2 years ago by
McGee, Monnie
▴ 300 • written 19.2 years ago by
Monnie McGee
▴ 20
0
votes
7
replies
1.1k
views
Gene filtering
genefilter
genefilter
updated 19.2 years ago by
Adaikalavan Ramasamy
★ 1.8k • written 19.2 years ago by
Heike Pospisil
▴ 310
0
votes
5
replies
1.3k
views
data() function problem
genefilter
genefilter
21.0 years ago
ZRG Zeren Gao
▴ 30
0
votes
3
replies
1.2k
views
Install of 1.5 Packages fails
GO
edd
genefilter
annaffy
affyPLM
marray
GO
edd
genefilter
annaffy
affyPLM
marray
updated 19.5 years ago by
rgentleman
★ 5.5k • written 19.5 years ago by
Thomas Girke
★ 1.7k
0
votes
2
replies
1.3k
views
gregmisc package-problems with BioC latest release?
Biobase
annotate
edd
genefilter
geneplotter
ROC
limma
siggenes
affyPLM
marray
Biobase
updated 19.5 years ago by
Seth Falcon
★ 7.4k • written 19.5 years ago by
Fátima Núñez
▴ 130
0
votes
2
replies
888
views
error in installing Bioconductor development packages
Biobase
annotate
genefilter
reposTools
affy
Biobase
annotate
genefilter
reposTools
affy
updated 19.2 years ago by
Seth Falcon
★ 7.4k • written 19.2 years ago by
Tom Shi
▴ 10
0
votes
2
replies
1.2k
views
Problems encountered using affy in R
Biobase
annotate
genefilter
multtest
ROC
tkWidgets
affy
vsn
Biobase
annotate
genefilter
updated 21.1 years ago by
Vincent J. Carey, Jr.
6.7k • written 21.1 years ago by
mary.e.logue@ucd.ie
▴ 20
0
votes
0
replies
853
views
question about multtest v.1.5.2
Survival
genefilter
multtest
reposTools
Survival
genefilter
multtest
reposTools
19.1 years ago
ivan.borozan@utoronto.ca
▴ 80
0
votes
2
replies
912
views
How to filter genes according to the intensities of both channels for cDNA array?
Normalization
probe
genefilter
Normalization
probe
genefilter
updated 19.0 years ago by
Sean Davis
21k • written 19.0 years ago by
Xiao Shi
▴ 90
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
Guillaume Meurice
▴ 210 • written 12.8 years ago by
Dana.Stanley@csiro.au
▴ 110
50 results • Page
1 of 1
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Comment: significant difference of p-values with dream() after updating VariancePartition
by
gabriel.hoffman
▴ 100
See variancePartition updates for [v1.33.11](https://diseaseneurogenomics.github.io/variancePartition/news/index.html#variancepartition-133…
Comment: A ComBat-seq issue: the covariates are confounded
by
W. Evan Johnson
▴ 850
This is only partially confounded because there is overlap between the batches -- they both have GFP controls that can be used to remove ba…
Answer: Different number of exons in reference genome affects DEXSeq analysis
by
Alejandro Reyes
★ 1.9k
Likely the new annotation that you are using has more annotated isoforms, and thus the exons are splitted into more disjoint exonic bins. I…
Answer: Adding columns to DEXSeqResults object
by
Alejandro Reyes
★ 1.9k
I'd have a look into the match function, that could give you a mapping between the ids in the dxr1 object and your data frame of gene symbo…
Answer: rlog transformation
by
Michael Love
41k
It is dependent on the other samples in the dataset.
Votes
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
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