Showing : hgu133a • reset
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How to do Affy ST array analysis
Annotation Normalization hgu133a probe affy oligo Annotation Normalization hgu133a probe
updated 9.6 years ago by • 0 • written 10.7 years ago by ★ 13k
6
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5
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Is filtering necessary to extract significant DE genes with limma ?
hgu133a
updated 8.8 years ago by 52k • written 8.8 years ago by ▴ 40
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1
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2.9k
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annotation package for HuEx-1_0-st-v1 platform instead of pd.huex.1.0.st.v1
Microarray Annotation hgu133a hgu133plus2 cdf Microarray Annotation hgu133a hgu133plus2
updated 11.1 years ago by ★ 3.9k • written 11.1 years ago by ▴ 10
2
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3
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hgu133plus2hsentrezgcdf or hgu133ahsentrezgcdf packages not installing
readaffy frma affy package installation hgu133a
6.8 years ago Chris Mancuso • 0
0
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5
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ReadAffy() Error - 2 Platforms in one file
hgu133a hgu133b hgu133plus2 hgu95a hgu95av2 hu6800 u133x3p hgu133a hgu133b hgu133plus2
updated 8.8 years ago by ▴ 110 • written 12.7 years ago by ▴ 760
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KEGG pathways gene list
hgu133a hgu133a
updated 17.8 years ago by ★ 1.2k • written 17.8 years ago by ▴ 600
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5
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Combining HGU133A & HGU133B data
hgu133a hgu133b hgu133a hgu133b
updated 21.4 years ago by ★ 1.1k • written 21.4 years ago by ▴ 80
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ArrayExpress: missing cdf environment!
Cancer hgu133a cdf ArrayExpress Cancer hgu133a cdf ArrayExpress
updated 14.3 years ago by ★ 13k • written 14.3 years ago by ▴ 110
1
vote
3
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views
Analyse of HGU133 set / Merge ExpressionSet
affy hgu133a hgu133b
updated 8.8 years ago by 67k • written 8.8 years ago by ▴ 40
0
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2
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views
how to create an affybatch
Normalization Regression hgu133a probe Normalization Regression hgu133a probe
15.5 years ago Venkat Sundar ▴ 30
0
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1
reply
1.9k
views
Problem reading CEL files
Normalization hgu133a affy Normalization hgu133a affy
20.7 years ago Xia Han ▴ 80
0
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2
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1.9k
views
Memory limit (vector size) o linux 64bit
hgu133a hgu133a
updated 17.9 years ago by 67k • written 17.9 years ago by ▴ 20
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3
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Can BioC still convert exprSet to ExpressionSet?
hgu133a hgu133plus2 mouse4302 convert hgu133a hgu133plus2 mouse4302 convert
updated 15.7 years ago by 25k • written 15.7 years ago by ▴ 100
0
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1
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1.9k
views
Reading in and normalising ht-hgu133a and hgu133a files together
hgu133a rma normalization affy
updated 9.8 years ago by ▴ 840 • written 9.8 years ago by • 0
0
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3
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1.9k
views
Application of multiple testing correction in the context of using Stouffer's method for combing p-values
Microarray hgu133a probe Microarray hgu133a probe
updated 16.8 years ago by ▴ 340 • written 16.9 years ago by ▴ 300
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1
reply
1.9k
views
getBM function in biomaRt
SNP GO hgu133a SNP GO hgu133a
updated 15.1 years ago by ▴ 600 • written 15.1 years ago by ★ 1.1k
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5
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1.8k
views
R crashes with GEOmetadb
hgu133a hgu133a
updated 13.6 years ago by 21k • written 13.6 years ago by ★ 4.1k
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9
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1.8k
views
Appropriate Probe annotation for HT-HGU133A chips
hgu133a hgu133plus2 cdf probe hgu133a hgu133plus2 cdf probe
updated 15.7 years ago by 67k • written 15.7 years ago by ▴ 30
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QC for HT HGU133A and U133A X3P
hgu133a hgu133plus2 cdf simpleaffy yaqcaffy hgu133a hgu133plus2 cdf simpleaffy yaqcaffy
11.3 years ago b a ▴ 40
0
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1
reply
1.8k
views
Limma: 2 venn diagrams on single page
hgu133a limma hgu133a limma
updated 15.8 years ago by 67k • written 15.8 years ago by ▴ 120
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4
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1.8k
views
error with ontoCompare (goTools)
GO hgu133a graph goTools GO hgu133a graph goTools
updated 16.0 years ago by ▴ 90 • written 16.0 years ago by ▴ 160
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1
reply
1.7k
views
CNV analysis with cghMCR/CNTools
GO CGH hgu133a hgu95av2 GO CGH hgu133a hgu95av2
updated 15.0 years ago by ★ 2.9k • written 15.0 years ago by ★ 1.1k
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2
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1.7k
views
KEGGgraph, error
Organism hgu133a KEGGgraph Organism hgu133a KEGGgraph
updated 15.8 years ago by ▴ 20 • written 15.8 years ago by ▴ 380
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4
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views
errors in FRMA
Annotation hgu133a2 hgu133a frma Annotation hgu133a2 hgu133a frma
updated 12.7 years ago by ▴ 830 • written 12.7 years ago by ▴ 510
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1
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1.6k
views
SCAN-UPC: 12079 of 22283 probes returned for hgu133a CELs?
Normalization hgu133a probe affy PROcess SCAN.UPC Normalization hgu133a probe affy
updated 11.7 years ago by ▴ 20 • written 11.7 years ago by ▴ 600
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[phenoTest package]: gsea.kegg error with absVals parameter
Pathways GO hgu133a hgu95av2 phenoTest Pathways GO hgu133a hgu95av2 phenoTest
10.8 years ago Kostas Kerkentzes ▴ 10
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3
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1.6k
views
Examples outdated in "Bioinformatics and Computational Biology Solutions Using R and Bioconductor"
Annotation GO hgu133a Annotation GO hgu133a
updated 15.4 years ago by ▴ 940 • written 15.4 years ago by ★ 2.0k
2
votes
3
replies
1.6k
views
unusal expression level values after normalization in Affymetrix microarray experiment
microarray gcrma affy hgu133a normalization
updated 7.8 years ago by 52k • written 7.8 years ago by ▴ 50
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1
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1.6k
views
combineAffyBatch
hgu133a Biobase matchprobes hgu133a Biobase matchprobes
updated 17.5 years ago by 25k • written 17.5 years ago by ▴ 140
0
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3
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1.6k
views
combining hgu133a and hgu133b
hgu133a hgu133b hgu133plus2 hgu133a hgu133b hgu133plus2
12.7 years ago Mayte Suarez-Farinas ▴ 510
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4
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1.6k
views
TimmR error for hgu133a.db
software error annotate hgu133a
updated 7.9 years ago by 67k • written 7.9 years ago by • 0
0
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views
Missing chromosomal locations in hgu133a package
hgu133a AnnBuilder safe hgu133a AnnBuilder safe
updated 18.5 years ago by ▴ 870 • written 18.5 years ago by ▴ 60
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1.6k
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FW: function error for "hyperGTest" in Category package
Annotation GO hgu133a probe GOstats Category Annotation GO hgu133a probe GOstats
updated 15.2 years ago by 25k • written 15.2 years ago by ▴ 60
0
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1
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1.5k
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SCAN-UPC: 12079 of 22283 probes returned for hgu133a CELs?
hgu133a probe affy SCAN.UPC hgu133a probe affy SCAN.UPC
updated 11.9 years ago by ▴ 20 • written 11.9 years ago by ▴ 600
0
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2
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1.5k
views
goTools package, ontoCompare error
Microarray GO hgu133a Microarray GO hgu133a
updated 15.2 years ago by 67k • written 15.2 years ago by ▴ 20
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6
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mapping probe sets from yeast2 array to probe sets in hgu133A
hgu133a yeast2 probe hgu133a yeast2 probe
updated 14.4 years ago by ▴ 60 • written 14.5 years ago by ▴ 350
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4
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1.5k
views
error with results.summary in simpleaffy
Annotation Cancer hgu133a probe simpleaffy Annotation Cancer hgu133a probe simpleaffy
updated 19.5 years ago by ▴ 160 • written 19.6 years ago by ★ 1.1k
1
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views
how often are annotation packages updated (with respect to hgu133a.db and hgu133plus2.db)
Annotation hgu133a hgu133plus2 probe Annotation hgu133a hgu133plus2 probe
updated 15.7 years ago by ★ 6.5k • written 15.7 years ago by ▴ 350
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3
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1.5k
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hgu133a annotation and discontinued Entrez IDs
Annotation hgu133a limma Annotation hgu133a limma
16.6 years ago David Fermin ▴ 20
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2
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1.5k
views
results.summary function returns error
Microarray Annotation hgu133a simpleaffy Microarray Annotation hgu133a simpleaffy
updated 12.2 years ago by 67k • written 12.2 years ago by ★ 13k
0
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3
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1.5k
views
annotating genes using KEGG
hgu133a cdf hgu133a cdf
15.9 years ago dhaarini s ▴ 70
0
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0
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1.4k
views
Gviz : UcscTrack ..
GO hgu133a GO hgu133a
12.5 years ago Tim Smith ★ 1.1k
2
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1.4k
views
around 2000 Affy probe set IDs cannot be mapped with Ensembl IDs by BiomaRt
microarray annotation biomart hgu133a
updated 7.6 years ago by 67k • written 7.6 years ago by • 0
0
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2
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1.4k
views
biomaRt query
GO hgu133a GO hgu133a
updated 15.3 years ago by ▴ 600 • written 15.3 years ago by ★ 1.1k
0
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1
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1.4k
views
affycomp and data.frame
hgu133a probe affycomp hgu133a probe affycomp
19.7 years ago Mohammad Esad-Djou ▴ 520
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1
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1.4k
views
Annotate Affy SNP6 probes in bioc
hgu133a annotate hgu133a annotate
updated 12.4 years ago by 6.7k • written 12.4 years ago by ▴ 170
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1
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1.3k
views
GOstats: HyperGTest for KEGG
Annotation GO Yeast hgu133a hgu133b hgu133plus2 hgu95a hgu95av2 hgug4110b hgug4112a GO
updated 16.0 years ago by ★ 7.2k • written 16.0 years ago by ▴ 180
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1
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1.3k
views
question about ontoCompare() performance change
Transcription GO hgu133a goTools Transcription GO hgu133a goTools
updated 15.6 years ago by ▴ 60 • written 15.6 years ago by ▴ 50
0
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0
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1.3k
views
GOstats: hyperGTest for KEGG with org.Sc.sgd.db
Annotation GO Yeast hgu133a hgu133b hgu133plus2 hgu95a hgu95av2 hgug4110b hgug4112a GO
16.0 years ago Paul Evans ▴ 180
0
votes
3
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1.3k
views
missing GO identifier in hgu133a GO
GO hgu133a hgu133b GO hgu133a hgu133b
updated 22.2 years ago by ★ 5.5k • written 22.2 years ago by ▴ 20
50 results • Page 1 of 1
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Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D by Michael Love 43k
hi, for questions about what statistical analysis approach to use, I recommend you work with a local statistician or someone familiar with …
Comment: Problems with oarfish + tximport + swish by Michael Love 43k
I'm not certain that this will work with Oarfish, the documentation only mentions Salmon and piscem. I'd use tximport for now.
Answer: Problems with oarfish + tximport + swish by Michael Love 43k
> This is fine Did tximeta() print that a matching transcriptome was found?
Answer: DESeq2 Heatmap by swbarnes2 ★ 1.4k
> However, I've been asked why the first column (vehicle/control) isn't > entirely zero on the log fold change (logFC) expression scale. …
Comment: Biomart and ensembl not working? by James W. MacDonald 67k
``` > library(biomaRt) > mart <- useEnsembl("ensembl","hsapiens_gene_ensembl") Ensembl site unresponsive, trying useast mirror > mart Objec…
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Answer: Limma Interaction Effect with Covariates
Comment: DESeq2 for single cell pseudobulk processing
C: Limma: how to get same output as topTable but for all the genes ?
A: Processing agilent data by limma
A: Linear regression in DESeq2
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