Showing : pdinfobuilder • reset
2
votes
8
replies
1.2k
views
pdInfoBuilder created problematic package for Affymetrix chip tiling array
oligoClasses oligo pdInfoBuilder
2.8 years ago • updated 2.7 years ago efoss ▴ 10
2
votes
3
replies
1.1k
views
Annotation package generation for HTA-2_0 by pdInfoBuilder fails
microarray pdInfoBuilder oligo
updated 3.8 years ago by 65k • written 3.8 years ago by • 0
6
votes
4
replies
2.6k
views
Affymetrix miRNA4.1 / oligo package / pd.mirna.4.1
microarray mirna oligo package pdinfobuilder pd.mirna
updated 4.4 years ago by ▴ 10 • written 6.9 years ago by ▴ 20
0
votes
7
replies
1.7k
views
oligo and GenericPDInfo
affy oligoclasses oligo package pdinfobuilder annotationdbi
updated 6.8 years ago by 65k • written 6.8 years ago by ▴ 510
1
vote
3
replies
2.9k
views
How to analyse clariom d human files
limma pdinfobuilder affy cdf
7.1 years ago yusuf.khan ▴ 10
3
votes
7
replies
1.7k
views
Oligo: cannot fit robust Probe Level linear Models / fitPLM when using a custom CDF
oligo pdinfobuilder pd.mogene.1.1.st customcdf
updated 7.6 years ago by 65k • written 8.1 years ago by ★ 3.9k
1
vote
5
replies
2.4k
views
Affymetrix Rat Transcriptome Array (Clariom D) annotation
annotation microarray pdinfobuilder oligo
7.6 years ago Ed D • 0
0
votes
3
replies
2.7k
views
Draft support for HTA 2.0 with oligo
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 7.8 years ago by ▴ 10 • written 10.2 years ago by ▴ 10
1
vote
0
replies
2.3k
views
The current annotation for Affymetrix HTA 2.0 array is problematic
oligo pdInfoBuilder pd.hta.2.0
8.8 years ago tangboyun ▴ 30
0
votes
2
replies
1.2k
views
Error with annotation package with pdInfoBuilder for NimbleGen arrays
pdinfobuilder oligo
updated 8.9 years ago by 65k • written 8.9 years ago by • 0
0
votes
5
replies
1.7k
views
Annotation package built with pdInfoBuilder cannot be installed
annotation pdinfobuilder
9.1 years ago alakatos ▴ 130
1
vote
3
replies
2.4k
views
Probeset/Transcript cluster definitions for HTA2.0 using pdInfoBuilder
BiocViews Annotation Organism biocViews pdInfoBuilder BiocViews BiocViews Annotation
updated 9.7 years ago by 65k • written 9.7 years ago by ▴ 40
0
votes
1
reply
1.3k
views
pd.mirna.4.1
pdInfoBuilder pdInfoBuilder
updated 10.0 years ago by 65k • written 10.0 years ago by ★ 13k
0
votes
0
replies
1.4k
views
Draft support for HTA 2.0 with oligo
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
10.0 years ago Elena Serrano ▴ 30
0
votes
0
replies
2.1k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
10.0 years ago Elena Serrano ▴ 30
0
votes
4
replies
6.4k
views
Problem "Error: is.character(filenames) is not TRUE" in read.xysfiles (Oligo package)
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 10.0 years ago by 65k • written 10.0 years ago by ▴ 60
0
votes
3
replies
1.2k
views
pdInfoBuilder - problem installing the annotation package
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 10.1 years ago by ★ 4.3k • written 10.1 years ago by ▴ 60
0
votes
1
reply
1.7k
views
Draft support for HTA 2.0 with oligo
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 10.2 years ago by ▴ 910 • written 10.2 years ago by ★ 4.3k
0
votes
0
replies
3.4k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
10.3 years ago Elena Serrano ▴ 30
0
votes
1
reply
2.0k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
updated 10.4 years ago by ★ 4.3k • written 10.4 years ago by ▴ 290
0
votes
1
reply
1.3k
views
upload multiple genelists at a time for GO or pathway enrichment
GO cdf oligo pdInfoBuilder xps GO cdf oligo pdInfoBuilder xps
updated 10.5 years ago by ▴ 190 • written 10.5 years ago by ▴ 100
0
votes
1
reply
1.1k
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 10.6 years ago by ▴ 50 • written 10.7 years ago by ★ 4.3k
0
votes
1
reply
1.2k
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
10.7 years ago Nitesh Turaga ▴ 50
0
votes
1
reply
1.4k
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 10.7 years ago by ★ 4.3k • written 10.7 years ago by ▴ 50
0
votes
4
replies
1.6k
views
FeatureExpressionSet using list.files() in place of read.xysfiles()
Microarray Annotation GO Organism probe annotate limma convert pdInfoBuilder sva GO sva
updated 10.9 years ago by ★ 4.3k • written 10.9 years ago by ▴ 140
0
votes
10
replies
3.0k
views
PAIR files -- feature set table
Microarray Annotation Organism annotate pdInfoBuilder Microarray Annotation Organism
updated 10.9 years ago by ★ 4.3k • written 10.9 years ago by ★ 13k
0
votes
7
replies
1.6k
views
install pdInfoBuilder package
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 11.4 years ago by ★ 4.3k • written 11.4 years ago by ▴ 40
0
votes
0
replies
827
views
Nimblegen microarray MM8_60mer_expr
Microarray Annotation oligo pdInfoBuilder Microarray Annotation oligo pdInfoBuilder
11.5 years ago Benilton Carvalho ★ 4.3k
0
votes
4
replies
1.5k
views
Passing multiple files to pdInfobuilder
BiocViews biocViews pdInfoBuilder BiocViews BiocViews biocViews pdInfoBuilder
updated 11.5 years ago by ▴ 50 • written 11.5 years ago by ★ 13k
0
votes
3
replies
2.0k
views
oligo and pd.aragene.1.1.st annotation
Annotation limma Category pdInfoBuilder Annotation limma Category pdInfoBuilder
updated 11.7 years ago by ★ 7.2k • written 11.7 years ago by ▴ 20
0
votes
2
replies
1.2k
views
oligo and pdInfoBuilder
Annotation Yeast oligo pdInfoBuilder Annotation Yeast oligo pdInfoBuilder
updated 11.9 years ago by 6.7k • written 11.9 years ago by ▴ 340
0
votes
0
replies
1.3k
views
Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.0 years ago zeynep özkeserli ▴ 160
0
votes
0
replies
1.3k
views
Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.0 years ago zeynep özkeserli ▴ 160
0
votes
2
replies
1.3k
views
oligo package: extracting position, sequence, and intensity from Affymetrix tiling array
BiocViews Organism biocViews oligo pdInfoBuilder BiocViews BiocViews Organism biocViews
updated 12.1 years ago by ★ 4.3k • written 12.1 years ago by ★ 13k
0
votes
2
replies
1.4k
views
pdInfoBuilder fails on the new Arabidopsis Gene ST 1.0 & 1.1 arrays
Annotation oligo pdInfoBuilder oligoClasses Annotation oligo pdInfoBuilder oligoClasses
updated 12.1 years ago by ★ 4.3k • written 12.1 years ago by ▴ 630
0
votes
0
replies
1.4k
views
Using pdInfoBuilder for Human Exon Array
BiocViews Annotation Organism cdf biocViews oligo pdInfoBuilder BiocViews BiocViews cdf
12.9 years ago Maria Rodrigo-Domingo / Region Nordjyll… ▴ 10
0
votes
1
reply
966
views
pdInfoBuilder
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 13.0 years ago by ★ 4.3k • written 13.0 years ago by ▴ 40
0
votes
3
replies
1.2k
views
Error using pdInfoBuilder for NimbleGen Array
Annotation pdInfoBuilder Annotation pdInfoBuilder
updated 13.2 years ago by 6.7k • written 13.2 years ago by ▴ 20
0
votes
0
replies
1.1k
views
Need help with pdInfoBuilder package for human ST arrays
Annotation affy oligo pdInfoBuilder Annotation affy oligo pdInfoBuilder
13.8 years ago He, Yiwen NIH/CIT ▴ 360
0
votes
2
replies
1.0k
views
pdInfoBuilder -- MOUSEDIVm520650
Annotation pdInfoBuilder crlmm Annotation pdInfoBuilder crlmm
updated 13.9 years ago by 65k • written 13.9 years ago by ▴ 100
0
votes
3
replies
1.2k
views
pdInfoBuider: how to view SQL scheme?
pdInfoBuilder pdInfoBuilder
updated 14.0 years ago by ★ 4.3k • written 14.0 years ago by ★ 3.9k
0
votes
8
replies
2.0k
views
pdInfoBuilder: invalid class object ("ScalarCharacter")
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 14.1 years ago by 6.7k • written 14.1 years ago by ★ 3.9k
0
votes
6
replies
1.6k
views
PdInfoBuilder for nimblegen array
Annotation Organism oligo pdInfoBuilder Annotation Organism oligo pdInfoBuilder
updated 14.2 years ago by ★ 4.3k • written 14.2 years ago by ▴ 40
0
votes
0
replies
800
views
TilingFeatureSet
GO pdInfoBuilder GO pdInfoBuilder
14.3 years ago Diego Martinez ▴ 10
0
votes
1
reply
1.2k
views
Help with Oligo Package: Extracting and Graphing
Transcription Normalization Yeast probe affy graph tilingArray oligo pdInfoBuilder Starr
updated 14.5 years ago by ▴ 430 • written 14.5 years ago by ▴ 410
0
votes
2
replies
1.7k
views
Affymetrix Mouse Promoter array / pdInfoBuilder
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
updated 14.5 years ago by ▴ 50 • written 14.5 years ago by ▴ 330
0
votes
0
replies
999
views
problem with pdInfoBuilder
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
14.9 years ago Elsa Aguera ▴ 10
0
votes
0
replies
1.1k
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
15.1 years ago James W. MacDonald 65k
0
votes
3
replies
1.5k
views
Problem with RMA using pdInfoBuilder, oligo and limma
cdf probe affy limma pdInfoBuilder cdf probe affy limma pdInfoBuilder
15.2 years ago Anne-Marie Madore ▴ 30
0
votes
2
replies
1.6k
views
Custom CDF files
Annotation GO cdf affy PROcess oligo pdInfoBuilder Annotation GO cdf affy PROcess
updated 15.4 years ago by ★ 1.1k • written 15.4 years ago by ▴ 20
50 results • Page 1 of 1
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Votes
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
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