Showing : AffymetrixChip • reset
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4
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373
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Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
5 weeks ago • updated 4 weeks ago Efra • 0
0
votes
1
reply
468
views
Affymetrix hgu133plus2.db: How to best derive an expression value for genes that map to multiple probe ids
affydata hgu133plus2.db AffymetrixChip
updated 9 months ago by ★ 4.0k • written 9 months ago by ▴ 10
1
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2
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481
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Affymetrix analysis Chiptype hgu133plus2hsentrezg.db vs hgu133plus2.db
hgu133plus2hsentrezg.db chiptype chipster hgu133plus2.db AffymetrixChip
10 months ago alexia.brunel • 0
1
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4
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661
views
How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
11 months ago • updated 8 months ago richardallenfriedmanbrooklyn ▴ 20
0
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0
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504
views
Volcano plot
limma AffymetrixChip
12 months ago e.gunaut • 0
2
votes
2
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655
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
12 months ago Abdul ▴ 20
1
vote
1
reply
752
views
Strange error with RMA during Affymetrix data analysis
AffymetrixChip RMA
updated 17 months ago by ★ 6.5k • written 17 months ago by ▴ 10
2
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2
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556
views
2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
18 months ago evan.j.williams ▴ 10
2
votes
2
replies
859
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
22 months ago Yang Shi ▴ 10
2
votes
5
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1.1k
views
Equivalence between PSDABG and Logarithmic Intensity Error (PLIER) Estimation
pd.hugene.1.0.st.v1 oligo AffymetrixChip
23 months ago • updated 22 months ago Yang Shi ▴ 10
2
votes
4
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1.1k
views
Robust Multi-array Average could get negative value or not?
pd.hg.u219 oligo AffymetrixChip
23 months ago Yang Shi ▴ 10
4
votes
10
replies
1.9k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
23 months ago Yang Shi ▴ 10
0
votes
2
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745
views
How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 24 months ago by 65k • written 24 months ago by • 0
0
votes
4
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906
views
getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.1 years ago Haoran • 0
2
votes
2
replies
978
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
3.0 years ago geoffrey ▴ 10
0
votes
1
reply
865
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.0 years ago by ★ 3.9k • written 3.0 years ago by • 0
3
votes
2
replies
1.5k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 8.4 years ago by 65k • written 8.4 years ago by • 0
0
votes
4
replies
2.3k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 8.9 years ago by ▴ 130 • written 9.0 years ago by ▴ 10
2
votes
5
replies
3.0k
views
miRNA expression analysis : annotation
miRNA annotation affymetrixchip
9.0 years ago aswathym ▴ 10
0
votes
0
replies
1.2k
views
Correst use of GeneOverlap R Package
GeneOverlap DEGgenes affymetrixchip bioconductor
9.1 years ago svlachavas ▴ 830
1
vote
3
replies
1.5k
views
BioNet package network analysis important questions for tutorial
BioNet bioconductor affymetrixchip network analysis
9.1 years ago svlachavas ▴ 830
5
votes
9
replies
3.1k
views
Merge different datasets regarding a common number of DE genes in R
bioconductor expresiondataset affymetrixchip differential gene expression
9.1 years ago svlachavas ▴ 830
1
vote
4
replies
3.4k
views
GeneChip Human Transcriptome Array 2.0 analysis in R for identifying possible differential exon splicing events
affymetrixchip GenechipHumanTranscriptomeArray2.0 exon array analysis
9.1 years ago svlachavas ▴ 830
3
votes
11
replies
3.5k
views
Filtering on present/absent calls methodology and perfect match only arrays
bioconductor mas5 perfectmatch affymetrixchip filter
updated 9.2 years ago by 65k • written 9.2 years ago by ▴ 830
0
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0
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2.2k
views
MAplot: Binning grid too coarse for current (small) bandwidth
affy affymetrix affymetrics affymetrixchip
9.3 years ago neverstop • 0
0
votes
1
reply
1.9k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 13.0 years ago by ★ 7.2k • written 13.0 years ago by ▴ 100
26 results • Page 1 of 1
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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Votes
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
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