Showing : AffymetrixChip • reset
0
votes
4
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383
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Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
6 weeks ago • updated 5 weeks ago Efra • 0
0
votes
1
reply
478
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 ★ 4.1k • written 9 months ago by ▴ 10
1
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2
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489
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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
vote
4
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675
views
How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
12 months ago • updated 9 months ago richardallenfriedmanbrooklyn ▴ 20
0
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0
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508
views
Volcano plot
limma AffymetrixChip
12 months ago e.gunaut • 0
2
votes
2
replies
660
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
756
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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564
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
18 months ago evan.j.williams ▴ 10
2
votes
2
replies
867
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
23 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 Yang Shi ▴ 10
2
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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
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2
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750
views
How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 24 months ago by 65k • written 2.0 years ago by • 0
0
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4
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917
views
getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.1 years ago Haoran • 0
2
votes
2
replies
984
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
3.0 years ago geoffrey ▴ 10
0
votes
1
reply
870
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.1 years ago by ★ 3.9k • written 3.1 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 8.5 years ago by 65k • written 8.5 years ago by • 0
0
votes
4
replies
2.3k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 9.0 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
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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
9.2 years ago • updated 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
9.2 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
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Answer: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k
This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…
Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by James W. MacDonald 65k
You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…
Answer: SGSeq: moving toward diffex from SGSeq analysis by Leonard Goldstein ▴ 200
`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…
Comment: Help with error using camera() in limma by Chris • 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Comment: limma for gene expression analysis with big and unbalanced sample size by XW • 0
Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
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