Showing : AffymetrixChip • reset
2
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536
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Using Affymetrix Custom Array
ArrayExpress makecdfenv AffymetrixChip gcrma GeneExpression
updated 13 months ago by 68k • written 13 months ago by • 0
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Remove Control Probes from Affymetrix Human Gene 1.0 ST Array probeset version
AffymetrixDataTestFiles AffymetrixChip
17 months ago drexjaramel • 0
0
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4
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1.1k
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Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
21 months ago Efra • 0
0
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1
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1.2k
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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 2.4 years ago by ★ 5.0k • written 2.4 years ago by ▴ 20
1
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2
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1.1k
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Affymetrix analysis Chiptype hgu133plus2hsentrezg.db vs hgu133plus2.db
hgu133plus2hsentrezg.db chiptype chipster hgu133plus2.db AffymetrixChip
2.5 years ago alexia.brunel • 0
1
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4
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1.4k
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How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
2.6 years ago • updated 2.4 years ago richardallenfriedmanbrooklyn ▴ 30
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995
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Volcano plot
limma AffymetrixChip
2.6 years ago e.gunaut • 0
2
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2
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1.2k
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Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
2.7 years ago Abdul ▴ 20
1
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1
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1.4k
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Strange error with RMA during Affymetrix data analysis
AffymetrixChip RMA
updated 3.1 years ago by ★ 6.6k • written 3.1 years ago by ▴ 20
2
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2
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1.1k
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
3.2 years ago evan.j.williams ▴ 10
2
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2
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1.4k
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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
3.5 years ago Yang Shi ▴ 10
2
votes
5
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1.7k
views
Equivalence between PSDABG and Logarithmic Intensity Error (PLIER) Estimation
pd.hugene.1.0.st.v1 oligo AffymetrixChip
3.5 years ago Yang Shi ▴ 10
2
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4
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1.9k
views
Robust Multi-array Average could get negative value or not?
pd.hg.u219 oligo AffymetrixChip
3.6 years ago Yang Shi ▴ 10
4
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10
replies
3.0k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
3.6 years ago Yang Shi ▴ 10
0
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2
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1.2k
views
How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 3.6 years ago by 68k • written 3.6 years ago by • 0
0
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4
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1.4k
views
getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
3.7 years ago Haoran • 0
2
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2
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1.5k
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
4.6 years ago geoffrey ▴ 10
0
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1
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1.3k
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Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 4.7 years ago by ★ 4.1k • written 4.7 years ago by • 0
3
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2
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1.9k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 10.1 years ago by 68k • written 10.1 years ago by • 0
0
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4
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2.8k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 10.6 years ago by ▴ 130 • written 10.6 years ago by ▴ 10
2
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5
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3.6k
views
miRNA expression analysis : annotation
miRNA annotation affymetrixchip
10.7 years ago aswathym ▴ 10
0
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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
10.7 years ago svlachavas ▴ 840
1
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3
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2.0k
views
BioNet package network analysis important questions for tutorial
BioNet bioconductor affymetrixchip network analysis
10.8 years ago svlachavas ▴ 840
5
votes
9
replies
4.3k
views
Merge different datasets regarding a common number of DE genes in R
bioconductor expresiondataset affymetrixchip differential gene expression
10.8 years ago svlachavas ▴ 840
1
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4
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4.0k
views
GeneChip Human Transcriptome Array 2.0 analysis in R for identifying possible differential exon splicing events
affymetrixchip GenechipHumanTranscriptomeArray2.0 exon array analysis
10.8 years ago svlachavas ▴ 840
3
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11
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4.3k
views
Filtering on present/absent calls methodology and perfect match only arrays
bioconductor mas5 perfectmatch affymetrixchip filter
updated 10.8 years ago by 68k • written 10.8 years ago by ▴ 840
0
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0
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2.6k
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MAplot: Binning grid too coarse for current (small) bandwidth
affy affymetrix affymetrics affymetrixchip
10.9 years ago neverstop • 0
0
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1
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2.3k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 14.6 years ago by ★ 7.2k • written 14.6 years ago by ▴ 100
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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