Showing : AffymetrixChip • reset
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Remove Control Probes from Affymetrix Human Gene 1.0 ST Array probeset version
AffymetrixDataTestFiles AffymetrixChip
4 months ago drexjaramel • 0
0
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4
replies
685
views
Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
7 months ago Efra • 0
0
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1
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749
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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 15 months ago by ★ 4.5k • written 15 months ago by ▴ 20
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2
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732
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Affymetrix analysis Chiptype hgu133plus2hsentrezg.db vs hgu133plus2.db
hgu133plus2hsentrezg.db chiptype chipster hgu133plus2.db AffymetrixChip
17 months ago alexia.brunel • 0
1
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4
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960
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How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
18 months ago • updated 15 months ago richardallenfriedmanbrooklyn ▴ 30
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0
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707
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Volcano plot
limma AffymetrixChip
18 months ago e.gunaut • 0
2
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2
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873
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Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
19 months ago Abdul ▴ 20
1
vote
1
reply
999
views
Strange error with RMA during Affymetrix data analysis
AffymetrixChip RMA
updated 24 months ago by ★ 6.6k • written 24 months ago by ▴ 20
2
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2
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716
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
2.0 years ago evan.j.williams ▴ 10
2
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2
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1.0k
views
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
2.4 years ago Yang Shi ▴ 10
2
votes
5
replies
1.3k
views
Equivalence between PSDABG and Logarithmic Intensity Error (PLIER) Estimation
pd.hugene.1.0.st.v1 oligo AffymetrixChip
2.4 years ago Yang Shi ▴ 10
2
votes
4
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1.4k
views
Robust Multi-array Average could get negative value or not?
pd.hg.u219 oligo AffymetrixChip
2.5 years ago Yang Shi ▴ 10
4
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10
replies
2.3k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
2.5 years ago Yang Shi ▴ 10
0
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2
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960
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How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 2.5 years ago by 67k • written 2.5 years ago by • 0
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4
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1.1k
views
getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.6 years ago Haoran • 0
2
votes
2
replies
1.2k
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
3.5 years ago geoffrey ▴ 10
0
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1
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1.1k
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.6 years ago by ★ 4.1k • written 3.6 years ago by • 0
3
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2
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1.7k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 9.0 years ago by 67k • written 9.0 years ago by • 0
0
votes
4
replies
2.5k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 9.5 years ago by ▴ 130 • written 9.5 years ago by ▴ 10
2
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5
replies
3.2k
views
miRNA expression analysis : annotation
miRNA annotation affymetrixchip
9.6 years ago aswathym ▴ 10
0
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0
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1.3k
views
Correst use of GeneOverlap R Package
GeneOverlap DEGgenes affymetrixchip bioconductor
9.6 years ago svlachavas ▴ 830
1
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3
replies
1.7k
views
BioNet package network analysis important questions for tutorial
BioNet bioconductor affymetrixchip network analysis
9.7 years ago svlachavas ▴ 830
5
votes
9
replies
3.5k
views
Merge different datasets regarding a common number of DE genes in R
bioconductor expresiondataset affymetrixchip differential gene expression
9.7 years ago svlachavas ▴ 830
1
vote
4
replies
3.6k
views
GeneChip Human Transcriptome Array 2.0 analysis in R for identifying possible differential exon splicing events
affymetrixchip GenechipHumanTranscriptomeArray2.0 exon array analysis
9.7 years ago svlachavas ▴ 830
3
votes
11
replies
3.8k
views
Filtering on present/absent calls methodology and perfect match only arrays
bioconductor mas5 perfectmatch affymetrixchip filter
updated 9.7 years ago by 67k • written 9.7 years ago by ▴ 830
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0
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2.4k
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MAplot: Binning grid too coarse for current (small) bandwidth
affy affymetrix affymetrics affymetrixchip
9.8 years ago neverstop • 0
0
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1
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2.0k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 13.5 years ago by ★ 7.2k • written 13.5 years ago by ▴ 100
27 results • Page 1 of 1
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Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column by GV Yoshikawa • 0
Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…
Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
Comment: Problem at champ.load by icecreamlover • 0
Hello! Were you able to figure this out? I am running into the same error!
Comment: ChAMP - obtaining beta values using EPICv2 annotation by icecreamlover • 0
Hello, Were you able to fix the error? I used the same document and I am running into the same error. I am curious if you have any feedba…
Votes
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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