Showing : genefilter • reset
1
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621
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DESeq: relaxing gene filtering thresholds increases mean-Sd correlation, but recovers many important genes
metaanalysis meanSd genefilter DESeq2
10 months ago Ndimensional ▴ 20
10
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23
replies
13k
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Macbook M1 install genefilter failed
DESeq2 m1 macbook genefilter
2.8 years ago • updated 18 months ago soda ▴ 80
1
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3
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2.9k
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DESeq2/genefilter compatibility with R 4.2.2
DESeq2 genefilter
18 months ago Morgane ▴ 10
1
vote
1
reply
670
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Weight Array Quality before of after applying variance filtering?
limma arrays genefilter
updated 22 months ago by 65k • written 22 months ago by ▴ 40
0
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0
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699
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Cannot Install genefilter
genefilter
22 months ago Francis • 0
0
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1
reply
692
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collided row names in heatmap.2
heatmap.2 genefilter deseq2
updated 2.7 years ago by 65k • written 2.7 years ago by • 0
0
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2
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1.2k
views
genefilter not available for R v4.1/arm64
DESeq2 genefilter
2.8 years ago jeremymsimon ▴ 20
0
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1
reply
704
views
Error using simpleaffy
software error simpleaffy genefilter
updated 4.7 years ago by 65k • written 4.7 years ago by • 0
9
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10
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2.1k
views
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
limma microarray genefilter deseq2
4.9 years ago Jurat Shahidin ▴ 80
0
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6
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1.9k
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Save ExpressionSet to csv file with columns and rows headers
microarray genefilter
updated 4.9 years ago by 65k • written 4.9 years ago by ▴ 10
0
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1
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1.4k
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genefilter Package not available for R 3.5.2
genefilter
5.3 years ago radhikasundar520 • 0
0
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1
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2.1k
views
Can not install packages
ballgown genefilter RskittleBrewer
updated 5.5 years ago by ★ 6.5k • written 5.5 years ago by • 0
0
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5
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1.8k
views
Annotating Expression Set for GSVA w/ Brainarray Human Gene 1.1 ST Array CDF
bioconductor brainarray genefilter oligo
updated 5.9 years ago by 65k • written 5.9 years ago by • 0
0
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1
reply
1.5k
views
Unable to compile genefilter package
bioconductor genefilter compile
updated 6.2 years ago by 65k • written 6.2 years ago by • 0
0
votes
3
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1.8k
views
error in filtering genes with rowVars(gexpr(bg_chrX)) >1
genefilter ballgown
updated 6.3 years ago by • 0 • written 6.7 years ago by • 0
0
votes
1
reply
1.8k
views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, ?
deseq2 filter genefilter
updated 6.5 years ago by 41k • written 6.5 years ago by • 0
1
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4
replies
1.9k
views
cran check shows that genefilter is not available
genefilter
6.5 years ago jinkaixiu ▴ 10
1
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3
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1.5k
views
Selecting genes that best separate between two groups
limma genefilter ttest clustering TPM
6.6 years ago lirongrossmann ▴ 80
1
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5
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1.1k
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error when trying to apply the specific gene filter.
genefilter
6.8 years ago DataFanatic ▴ 10
6
votes
5
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14k
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Installation of package DESeq2
deseq2 rcurl annotate genefilter geneplotter
updated 7.3 years ago by 25k • written 7.3 years ago by ▴ 10
1
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4
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1.4k
views
Error in the package of "genefilter" "nsFilter"
genefilter
updated 7.6 years ago by 65k • written 7.6 years ago by ▴ 20
3
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5
replies
2.2k
views
Fail to install "AnnotationHub"
software error annotation genefilter pd.hta.2.0
updated 7.6 years ago by 25k • written 7.6 years ago by ▴ 20
4
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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 ★ 28k • written 7.8 years ago by • 0
6
votes
6
replies
1.9k
views
genefilter filtered out 60% of the original genes?
genefilter edgeR
updated 8.0 years ago by ▴ 180 • written 8.0 years ago by ▴ 20
1
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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
2
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1
reply
1.5k
views
Filtering array data with nsFilter
genefilter nsFilter
updated 8.0 years ago by 50k • written 8.0 years ago by • 0
0
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1
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955
views
Really weird results when I filter this new data that I have, script has worked on two previous data sets.
microarray limma genefilter
updated 8.2 years ago by 65k • written 8.2 years ago by • 0
0
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1
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1.2k
views
nsFilter not filtering out all of the normgene->exon.
genefilter affymetrix microarrays
updated 8.2 years ago by 65k • written 8.2 years ago by • 0
2
votes
2
replies
1.3k
views
I'm looking for a filtering method that it does't use genewise variances
genefilter liimma microarray
updated 8.4 years ago by ★ 13k • written 8.4 years ago by ▴ 20
4
votes
4
replies
2.2k
views
Suggestions for non-specific filtering criteria with limma
limma genefilter
updated 8.4 years ago by ★ 13k • written 8.4 years ago by ▴ 10
4
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4
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2.6k
views
DEXSeq and Independent filtering
dexseq deseq2 genefilter
updated 8.5 years ago by ★ 13k • written 8.5 years ago by ▴ 20
2
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12
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2.4k
views
I want to order genes in GO groups
gene ontology genefilter
updated 8.6 years ago by ▴ 360 • written 8.6 years ago by ▴ 10
0
votes
2
replies
2.9k
views
Error with oligo: environmentIsLocked
oligo bioconductor genefilter
updated 8.7 years ago by 65k • written 8.7 years ago by ▴ 10
0
votes
1
reply
1.5k
views
simpleaffy segmentation fault
Survival probe genefilter affy affyio Survival probe genefilter affy affyio
updated 9.0 years ago by • 0 • written 17.3 years ago by ▴ 170
2
votes
7
replies
1.7k
views
why genefilter does not work for me ?
R microarray genefilter
9.2 years ago Nemo ▴ 80
4
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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 50k • written 9.3 years ago by ▴ 830
7
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5
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2.0k
views
Adjusted P values
limma genefilter
updated 9.5 years ago by 50k • written 9.5 years ago by ▴ 10
2
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4
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1.7k
views
filter.log in nsFilter function (package genefilter) gives null value
genefilter
updated 9.6 years ago by 65k • written 9.6 years ago by ▴ 10
1
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3
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9.0k
views
genefilter installation error
genefilter genefilter
updated 9.7 years ago by ▴ 150 • written 9.7 years ago by ▴ 10
0
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1
reply
1.1k
views
selection of probes, probesets mapping to the same gene
genefilter genefilter
updated 9.8 years ago by ★ 13k • written 9.8 years ago by ▴ 680
0
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2
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1.4k
views
Fwd: adjusted P-values
Cancer genefilter Cancer genefilter
updated 10.0 years ago by ★ 4.2k • written 10.0 years ago by ▴ 190
0
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0
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912
views
adjusted P-values
genefilter genefilter
10.0 years ago Guest User ★ 13k
0
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1
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3.9k
views
error in installing \"genefilter\"
genefilter genefilter
updated 10.0 years ago by 65k • written 10.0 years ago by ★ 13k
1
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1
reply
2.0k
views
Rosetta Resolver-like error-weighted ANOVAs in Bioconductor
Microarray genefilter affy Microarray genefilter affy
updated 10.2 years ago by ★ 7.9k • written 10.2 years ago by ▴ 10
0
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4
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1.9k
views
genefilter kOverA filter by range
genefilter genefilter
updated 10.3 years ago by 65k • written 10.3 years ago by ▴ 220
0
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1
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1.1k
views
Fwd: [devteam-bioc] information about genefilter package
Microarray genefilter limma Microarray genefilter limma
updated 10.5 years ago by 65k • written 10.5 years ago by 16k
0
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3
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2.0k
views
Problem installing genefilter (Ubuntu 12.04; Bioconductor v2.12)
genefilter genefilter
updated 10.8 years ago by 65k • written 10.8 years ago by ★ 13k
0
votes
9
replies
1.6k
views
Error in calculating P-values with Genefilter function
genefilter genefilter
updated 10.9 years ago by 65k • written 10.9 years ago by ★ 13k
0
votes
2
replies
2.4k
views
[R] Select single probe-set with median expression from multiple probe-sets corresponding to same gene -AFFY
GO probe Biobase genefilter GO probe Biobase genefilter
updated 11.1 years ago by 25k • written 11.1 years ago by ▴ 30
0
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0
replies
953
views
analysis of HuGene2.0-st array affymetrix -aroma package
genefilter genefilter
11.1 years ago Andreia Fonseca ▴ 810
50 results • Page 1 of 1
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Replies
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…
Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0
Thank you Tim, this is a great help in getting me started!
Votes
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
A: Print Differentially Expressed Exons From Dexseq Results
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