Showing : pdinfobuilder • reset
2
votes
8
replies
1.5k
views
pdInfoBuilder created problematic package for Affymetrix chip tiling array
oligoClasses oligo pdInfoBuilder
3.6 years ago • updated 3.5 years ago efoss ▴ 10
2
votes
3
replies
1.5k
views
Annotation package generation for HTA-2_0 by pdInfoBuilder fails
microarray pdInfoBuilder oligo
updated 4.6 years ago by 67k • written 4.6 years ago by • 0
6
votes
4
replies
3.0k
views
Affymetrix miRNA4.1 / oligo package / pd.mirna.4.1
microarray mirna oligo package pdinfobuilder pd.mirna
updated 5.2 years ago by ▴ 10 • written 7.6 years ago by ▴ 20
0
votes
7
replies
2.0k
views
oligo and GenericPDInfo
affy oligoclasses oligo package pdinfobuilder annotationdbi
updated 7.5 years ago by 67k • written 7.5 years ago by ▴ 510
1
vote
3
replies
3.3k
views
How to analyse clariom d human files
limma pdinfobuilder affy cdf
7.9 years ago yusuf.khan ▴ 10
3
votes
7
replies
2.0k
views
Oligo: cannot fit robust Probe Level linear Models / fitPLM when using a custom CDF
oligo pdinfobuilder pd.mogene.1.1.st customcdf
updated 8.3 years ago by 67k • written 8.8 years ago by ★ 4.1k
1
vote
5
replies
2.7k
views
Affymetrix Rat Transcriptome Array (Clariom D) annotation
annotation microarray pdinfobuilder oligo
8.4 years ago Ed D • 0
0
votes
3
replies
2.9k
views
Draft support for HTA 2.0 with oligo
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 8.5 years ago by ▴ 10 • written 10.9 years ago by ▴ 10
1
vote
0
replies
2.5k
views
The current annotation for Affymetrix HTA 2.0 array is problematic
oligo pdInfoBuilder pd.hta.2.0
9.5 years ago tangboyun ▴ 30
0
votes
2
replies
1.4k
views
Error with annotation package with pdInfoBuilder for NimbleGen arrays
pdinfobuilder oligo
updated 9.6 years ago by 67k • written 9.6 years ago by • 0
0
votes
5
replies
1.9k
views
Annotation package built with pdInfoBuilder cannot be installed
annotation pdinfobuilder
9.8 years ago alakatos ▴ 130
1
vote
3
replies
2.7k
views
Probeset/Transcript cluster definitions for HTA2.0 using pdInfoBuilder
BiocViews Annotation Organism biocViews pdInfoBuilder BiocViews BiocViews Annotation
updated 10.4 years ago by 67k • written 10.4 years ago by ▴ 40
0
votes
1
reply
1.5k
views
pd.mirna.4.1
pdInfoBuilder pdInfoBuilder
updated 10.7 years ago by 67k • written 10.7 years ago by ★ 13k
0
votes
0
replies
1.6k
views
Draft support for HTA 2.0 with oligo
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
10.8 years ago Elena Serrano ▴ 30
0
votes
0
replies
2.3k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
10.8 years ago Elena Serrano ▴ 30
0
votes
4
replies
6.6k
views
Problem "Error: is.character(filenames) is not TRUE" in read.xysfiles (Oligo package)
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 10.8 years ago by 67k • written 10.8 years ago by ▴ 60
0
votes
3
replies
1.3k
views
pdInfoBuilder - problem installing the annotation package
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 10.8 years ago by ★ 4.3k • written 10.8 years ago by ▴ 60
0
votes
1
reply
1.9k
views
Draft support for HTA 2.0 with oligo
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 11.0 years ago by ▴ 910 • written 11.0 years ago by ★ 4.3k
0
votes
0
replies
3.6k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
11.0 years ago Elena Serrano ▴ 30
0
votes
1
reply
2.3k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
updated 11.2 years ago by ★ 4.3k • written 11.2 years ago by ▴ 290
0
votes
1
reply
1.4k
views
upload multiple genelists at a time for GO or pathway enrichment
GO cdf oligo pdInfoBuilder xps GO cdf oligo pdInfoBuilder xps
updated 11.3 years ago by ▴ 190 • written 11.3 years ago by ▴ 100
0
votes
1
reply
1.3k
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
updated 11.4 years ago by ▴ 50 • written 11.4 years ago by ★ 4.3k
0
votes
1
reply
1.3k
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
11.4 years ago Nitesh Turaga ▴ 50
0
votes
1
reply
1.5k
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
updated 11.4 years ago by ★ 4.3k • written 11.4 years ago by ▴ 50
0
votes
4
replies
1.8k
views
FeatureExpressionSet using list.files() in place of read.xysfiles()
Microarray Annotation GO Organism probe annotate limma convert pdInfoBuilder sva GO sva
updated 11.6 years ago by ★ 4.3k • written 11.6 years ago by ▴ 140
0
votes
10
replies
3.3k
views
PAIR files -- feature set table
Microarray Annotation Organism annotate pdInfoBuilder Microarray Annotation Organism
updated 11.7 years ago by ★ 4.3k • written 11.7 years ago by ★ 13k
0
votes
7
replies
1.9k
views
install pdInfoBuilder package
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 12.2 years ago by ★ 4.3k • written 12.2 years ago by ▴ 40
0
votes
0
replies
979
views
Nimblegen microarray MM8_60mer_expr
Microarray Annotation oligo pdInfoBuilder Microarray Annotation oligo pdInfoBuilder
12.2 years ago Benilton Carvalho ★ 4.3k
0
votes
4
replies
1.8k
views
Passing multiple files to pdInfobuilder
BiocViews biocViews pdInfoBuilder BiocViews BiocViews biocViews pdInfoBuilder
updated 12.3 years ago by ▴ 50 • written 12.3 years ago by ★ 13k
0
votes
3
replies
2.2k
views
oligo and pd.aragene.1.1.st annotation
Annotation limma Category pdInfoBuilder Annotation limma Category pdInfoBuilder
updated 12.5 years ago by ★ 7.2k • written 12.5 years ago by ▴ 20
0
votes
2
replies
1.4k
views
oligo and pdInfoBuilder
Annotation Yeast oligo pdInfoBuilder Annotation Yeast oligo pdInfoBuilder
updated 12.7 years ago by 6.7k • written 12.7 years ago by ▴ 340
0
votes
0
replies
1.4k
views
Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.8 years ago zeynep özkeserli ▴ 160
0
votes
0
replies
1.5k
views
Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.8 years ago zeynep özkeserli ▴ 160
0
votes
2
replies
1.5k
views
oligo package: extracting position, sequence, and intensity from Affymetrix tiling array
BiocViews Organism biocViews oligo pdInfoBuilder BiocViews BiocViews Organism biocViews
updated 12.8 years ago by ★ 4.3k • written 12.8 years ago by ★ 13k
0
votes
2
replies
1.6k
views
pdInfoBuilder fails on the new Arabidopsis Gene ST 1.0 & 1.1 arrays
Annotation oligo pdInfoBuilder oligoClasses Annotation oligo pdInfoBuilder oligoClasses
updated 12.9 years ago by ★ 4.3k • written 12.9 years ago by ▴ 630
0
votes
0
replies
1.6k
views
Using pdInfoBuilder for Human Exon Array
BiocViews Annotation Organism cdf biocViews oligo pdInfoBuilder BiocViews BiocViews cdf
13.6 years ago Maria Rodrigo-Domingo / Region Nordjyll… ▴ 10
0
votes
1
reply
1.1k
views
pdInfoBuilder
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 13.8 years ago by ★ 4.3k • written 13.8 years ago by ▴ 40
0
votes
3
replies
1.3k
views
Error using pdInfoBuilder for NimbleGen Array
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 14.0 years ago by 6.7k • written 14.0 years ago by ▴ 20
0
votes
0
replies
1.2k
views
Need help with pdInfoBuilder package for human ST arrays
Annotation affy oligo pdInfoBuilder Annotation affy oligo pdInfoBuilder
14.6 years ago He, Yiwen NIH/CIT ▴ 360
0
votes
2
replies
1.2k
views
pdInfoBuilder -- MOUSEDIVm520650
Annotation pdInfoBuilder crlmm Annotation pdInfoBuilder crlmm
updated 14.7 years ago by 67k • written 14.7 years ago by ▴ 100
0
votes
3
replies
1.3k
views
pdInfoBuider: how to view SQL scheme?
pdInfoBuilder pdInfoBuilder
updated 14.8 years ago by ★ 4.3k • written 14.8 years ago by ★ 4.1k
0
votes
8
replies
2.3k
views
pdInfoBuilder: invalid class object ("ScalarCharacter")
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 14.8 years ago by 6.7k • written 14.8 years ago by ★ 4.1k
0
votes
6
replies
1.9k
views
PdInfoBuilder for nimblegen array
Annotation Organism oligo pdInfoBuilder Annotation Organism oligo pdInfoBuilder
updated 14.9 years ago by ★ 4.3k • written 15.0 years ago by ▴ 40
0
votes
0
replies
910
views
TilingFeatureSet
GO pdInfoBuilder GO pdInfoBuilder
15.1 years ago Diego Martinez ▴ 10
0
votes
1
reply
1.4k
views
Help with Oligo Package: Extracting and Graphing
Transcription Normalization Yeast probe affy graph tilingArray oligo pdInfoBuilder Starr
updated 15.2 years ago by ▴ 430 • written 15.2 years ago by ▴ 410
0
votes
2
replies
1.9k
views
Affymetrix Mouse Promoter array / pdInfoBuilder
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 15.3 years ago by ▴ 50 • written 15.3 years ago by ▴ 330
0
votes
0
replies
1.1k
views
problem with pdInfoBuilder
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
15.7 years ago Elsa Aguera ▴ 10
0
votes
0
replies
1.2k
views
[R] Need to build package for Affy HT HG-U133+ PM arrays
Annotation GO cdf probe affy pdInfoBuilder Annotation GO cdf probe affy pdInfoBuilder
15.9 years ago James W. MacDonald 67k
0
votes
3
replies
1.7k
views
Problem with RMA using pdInfoBuilder, oligo and limma
cdf probe affy limma pdInfoBuilder cdf probe affy limma pdInfoBuilder
16.0 years ago Anne-Marie Madore ▴ 30
0
votes
2
replies
1.9k
views
Custom CDF files
Annotation GO cdf affy PROcess oligo pdInfoBuilder Annotation GO cdf affy PROcess
updated 16.2 years ago by ★ 1.1k • written 16.2 years ago by ▴ 20
50 results • Page 1 of 1
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Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k
FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…
Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10
I see. Thank you ATpoint!
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0
Thanks James!
Comment: Why select top highly expressed genes based on normalized counts, but then plot by ATpoint ★ 4.6k
I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…
Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10
Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…
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Bioconductor Course, Kenya 2025: Applications Open!
Comment: can't install tscR
Answer: Csaw normalization strategies - general inquiry
A: DESeq2 interaction term
Comment: Recount3 data correspond to TCGA data
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