Showing : AffymetrixChip • reset
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Using Affymetrix Custom Array
ArrayExpress makecdfenv AffymetrixChip gcrma GeneExpression
updated 9 months ago by 68k • written 9 months ago by • 0
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Remove Control Probes from Affymetrix Human Gene 1.0 ST Array probeset version
AffymetrixDataTestFiles AffymetrixChip
14 months ago drexjaramel • 0
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4
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Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
18 months ago • updated 17 months ago Efra • 0
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Affymetrix hgu133plus2.db: How to best derive an expression value for genes that map to multiple probe ids
affydata hgu133plus2.db AffymetrixChip
updated 2.1 years ago by ★ 4.9k • written 2.1 years ago by ▴ 20
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Affymetrix analysis Chiptype hgu133plus2hsentrezg.db vs hgu133plus2.db
hgu133plus2hsentrezg.db chiptype chipster hgu133plus2.db AffymetrixChip
2.3 years ago alexia.brunel • 0
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How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
2.4 years ago • updated 2.1 years ago richardallenfriedmanbrooklyn ▴ 30
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920
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Volcano plot
limma AffymetrixChip
2.4 years ago e.gunaut • 0
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2
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1.1k
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Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
2.4 years ago Abdul ▴ 20
1
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1
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1.3k
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Strange error with RMA during Affymetrix data analysis
AffymetrixChip RMA
updated 2.8 years ago by ★ 6.6k • written 2.8 years ago by ▴ 20
2
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966
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
2.9 years ago evan.j.williams ▴ 10
2
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2
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1.3k
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How to compute P/A calls at gene-level probeset of Human Gene 1.0 ST Array
pd.hugene.1.0.st.v1 oligo AffymetrixChip
3.3 years ago Yang Shi ▴ 10
2
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5
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1.6k
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Equivalence between PSDABG and Logarithmic Intensity Error (PLIER) Estimation
pd.hugene.1.0.st.v1 oligo AffymetrixChip
3.3 years ago Yang Shi ▴ 10
2
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4
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1.7k
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Robust Multi-array Average could get negative value or not?
pd.hg.u219 oligo AffymetrixChip
3.3 years ago Yang Shi ▴ 10
4
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10
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2.8k
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Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
3.3 years ago Yang Shi ▴ 10
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2
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1.2k
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How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 3.4 years ago by 68k • written 3.4 years ago by • 0
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4
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1.3k
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getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
3.5 years ago Haoran • 0
2
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2
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1.4k
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Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
4.3 years ago geoffrey ▴ 10
0
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1
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1.2k
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Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 4.4 years ago by ★ 4.1k • written 4.4 years ago by • 0
3
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2
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1.9k
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Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 9.8 years ago by 68k • written 9.8 years ago by • 0
0
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4
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2.7k
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HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 10.3 years ago by ▴ 130 • written 10.3 years ago by ▴ 10
2
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5
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3.5k
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miRNA expression analysis : annotation
miRNA annotation affymetrixchip
10.4 years ago aswathym ▴ 10
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0
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1.5k
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Correst use of GeneOverlap R Package
GeneOverlap DEGgenes affymetrixchip bioconductor
10.4 years ago svlachavas ▴ 840
1
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3
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1.9k
views
BioNet package network analysis important questions for tutorial
BioNet bioconductor affymetrixchip network analysis
10.5 years ago svlachavas ▴ 840
5
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9
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4.1k
views
Merge different datasets regarding a common number of DE genes in R
bioconductor expresiondataset affymetrixchip differential gene expression
10.5 years ago svlachavas ▴ 840
1
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4
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3.9k
views
GeneChip Human Transcriptome Array 2.0 analysis in R for identifying possible differential exon splicing events
affymetrixchip GenechipHumanTranscriptomeArray2.0 exon array analysis
10.5 years ago svlachavas ▴ 840
3
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11
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4.1k
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Filtering on present/absent calls methodology and perfect match only arrays
bioconductor mas5 perfectmatch affymetrixchip filter
updated 10.6 years ago by 68k • written 10.6 years ago by ▴ 840
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2.6k
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MAplot: Binning grid too coarse for current (small) bandwidth
affy affymetrix affymetrics affymetrixchip
10.7 years ago neverstop • 0
0
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1
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2.2k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 14.4 years ago by ★ 7.2k • written 14.4 years ago by ▴ 100
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Comment: Heatmap of the Count Matrix by ArnulfoByrd • 0
Perhaps PCA loadings offer a more comprehensive perspective. Now, thinking back, I recall struggling with a similar data reduction dilemma …
Answer: readBam vs read_bam_insert_metrics by James W. MacDonald 68k
Depends on what you mean by input. If you mean to ask if you use `readBam` to generate something to use as an argument to `read_bam_insert_…
Answer: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by James W. MacDonald 68k
There is an example in the help page for `forgeBSgenomePkgFromTwobitFile`. Have you tried emulating that?
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k
What you describe sounds a good approach to me. I would also use sample weights (`sample.weights=TRUE` when running `voomLmFit`) and robust…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k
I moved your post from an "answer" to a "comment". I don't know about `offst()` function, what is the scale or direction, or whether you a…
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Answer: Limpa Pipeline Order
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
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