Showing : oligoClasses • reset
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Custom CDF creation for HTA 2.0 array using GTF annotation
oligo oligoClasses pdInfoBuilder affycoretools affyio
9 months ago Seymoo • 0
0
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3
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2.5k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 4.9 years ago by • 0
2
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8
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1.9k
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pdInfoBuilder created problematic package for Affymetrix chip tiling array
oligoClasses oligo pdInfoBuilder
4.6 years ago • updated 4.5 years ago efoss ▴ 10
2
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6
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4.7k
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Can't install package oligoClasses
R oligoClasses ff
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by ▴ 20
2
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2
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2.7k
views
IRanges which are not S4 generic: endoapply mendoapply error in loading oligoclasses
iranges oligoclasses BiocGenerics
7.6 years ago GENOMIC_region • 0
0
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7
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2.5k
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oligo and GenericPDInfo
affy oligoclasses oligo package pdinfobuilder annotationdbi
updated 8.5 years ago by 68k • written 8.5 years ago by ▴ 510
2
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1
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1.6k
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Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 9.0 years ago by 68k • written 9.0 years ago by • 0
2
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4
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1.9k
views
getProbeInfo and exprs return matrices and data.frames of different dimensions
oligo oligoclasses affy
updated 9.3 years ago by 68k • written 9.3 years ago by • 0
0
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3.0k
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Cannot install Oligo package
oligo oligoclasses
9.5 years ago Anna Dvorkin ▴ 40
0
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2
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2.3k
views
pdInfoBuilder fails on Affy's GeneChip Human Transcriptome Array 2.0
BiocViews Annotation Organism biocViews oligo oligoClasses BiocViews BiocViews Annotation
updated 10.7 years ago by ▴ 20 • written 12.0 years ago by ▴ 40
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0
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1.9k
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Error using oligo package with Affymetrix Arabidopsis Gene ST1.0 array data: paCalls() returns error 'vector would be too long'
oligo oligoClasses oligo oligoClasses
12.1 years ago Peter Crisp ▴ 10
0
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1
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1.9k
views
limma2annaffy
GO GUI annaffy oligo oligoClasses KEGGREST GO GUI annaffy oligo oligoClasses KEGGREST
updated 12.1 years ago by 68k • written 12.1 years ago by ★ 13k
0
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8
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2.8k
views
vsn preprocess with oligo package
vsn oligo oligoClasses vsn oligo oligoClasses
updated 13.0 years ago by 68k • written 13.0 years ago by ▴ 110
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4
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3.3k
views
Problems with 'affxparser' package
oligoClasses oligoClasses
13.1 years ago Valor Becerra, Luis Miguel ▴ 30
3
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4
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2.3k
views
cause 'memory not mapped' when use oligo
oligo oligoClasses oligo oligoClasses
updated 13.3 years ago by ▴ 50 • written 13.3 years ago by ★ 1.3k
0
votes
4
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3.6k
views
Error : package slot missing from signature for generic
Biobase lumi oligoClasses Biobase lumi oligoClasses
13.5 years ago Mark Cowley ▴ 910
0
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2
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1.8k
views
pdInfoBuilder fails on the new Arabidopsis Gene ST 1.0 & 1.1 arrays
Annotation oligo pdInfoBuilder oligoClasses Annotation oligo pdInfoBuilder oligoClasses
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ▴ 630
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0
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1.7k
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Question about using oligo and SNPchip for copy number analysis
SNP Cancer graph oligo SNPchip oligoClasses VanillaICE crlmm SNP Cancer graph oligo
16.7 years ago Min-Han Tan ▴ 40
0
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1
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1.3k
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Bioconductor Digest, Vol 68, Issue 7
oligo pdInfoBuilder oligoClasses oligo pdInfoBuilder oligoClasses
written 17.3 years ago by ▴ 70
19 results • Page 1 of 1
Recent ...
Replies
Answer: Array weights in dpcDE by Gordon Smyth 53k
The uncertainty of quantification is fully accounted for in the dpcDE() analysis, including in the computation of sample weights. However,…
Answer: lfc shrinkage estimator in DESeq2 by Michael Love 43k
Try the vignette which has a lot of information on these type of questions.
Comment: limpa analysis advice by Gordon Smyth 53k
The DPC slope is beta1. The estimated slopes for your data look pretty low, lower than I've ever used for a real dataset. Nevertheless, as …
Comment: limpa analysis advice by SamGG ▴ 360
Thanks for your feedback and for reassuring me. :-) As you suggested, I tried dpcCN() and set the slope to 0.7 in addition to the standard…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0
Good point, I hadn't considered the fact quantitative `time` implies a (logit-)linear response *to* time. You're correct that I haven't exp…
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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