Showing : annotationdata • reset
2
votes
1
reply
111
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Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 7 days ago by 58k • written 7 days ago by • 0
2
votes
1
reply
172
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 5 months ago by ★ 1.9k • written 5 months ago by ▴ 480
3
votes
6
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278
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Extremely big genes in annotation TxDb packages
annotation txdb AnnotationData Genetics
updated 14 months ago by 58k • written 14 months ago by ▴ 10
2
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0
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320
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News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 2.4 years ago by • 0 • written 2.4 years ago by 2.8k
0
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0
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364
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News: ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub annotationdata ensembl gtf 2bit News
2.6 years ago shepherl 2.8k
1
vote
7
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493
views
News: ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
2.9 years ago shepherl 2.8k
0
votes
0
replies
433
views
News: ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub ensembl gtf 2bit annotationdata News
3.1 years ago shepherl 2.8k
2
votes
1
reply
509
views
How to get chip information from annotation databases
bioconductor annotationdata hgu133a
updated 3.5 years ago by 25k • written 3.5 years ago by ▴ 260
0
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3
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806
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Which annotationData package should I use?
annotationdata Rosetta/Merck Human RSTA Custom Affymetrix 2.0 microarray
updated 4.0 years ago by 58k • written 4.0 years ago by • 0
0
votes
3
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1.0k
views
Question about the ChIPpeakAnno:
ChIPchip Annotation AnnotationData ChIPchip Annotation AnnotationData
updated 4.3 years ago by • 0 • written 7.4 years ago by ★ 4.3k
1
vote
1
reply
712
views
select function not working with annotation package; bug?
annotation annotationdata illuminaMousev1p1.db
updated 4.7 years ago by 58k • written 4.7 years ago by ★ 3.0k
3
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2
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1.0k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 5.8 years ago by 58k • written 5.8 years ago by • 0
1
vote
1
reply
776
views
ChIPpeakAnno: Invalid row.names length in peaksNearBDP
Annotation AnnotationData Annotation AnnotationData
updated 7.1 years ago by ★ 4.3k • written 7.1 years ago by ▴ 30
0
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1
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1.2k
views
ChIPpeakAnno: Maxgap option in annotatePeakInBatch
Lung AnnotationData ChIPpeakAnno Lung AnnotationData ChIPpeakAnno
7.1 years ago Julie Zhu ★ 4.3k
0
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3
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915
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TranscriptDb object to RangedData for ChIPpeakAnno
Annotation GO AnnotationData Organism BSgenome TranscriptDb convert BSgenome ChIPpeakAnno
8.2 years ago Alan Smith ▴ 150
0
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3
replies
1.1k
views
Use ChIPpeakAnno to find two-sided nearest genes to a peak
AnnotationData annotate ChIPpeakAnno AnnotationData annotate ChIPpeakAnno
8.8 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
589
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Question about ChIPpeakAnno R package
AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno
9.1 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
575
views
ChIPpeakAnno
AnnotationData AnnotationData
updated 9.3 years ago by ★ 4.3k • written 9.3 years ago by ★ 12k
0
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4
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1.3k
views
ChIPpeakAnno as.data.frame error
GO AnnotationData annotate convert ChIPpeakAnno GO AnnotationData annotate convert
updated 9.6 years ago by ★ 4.3k • written 9.6 years ago by ▴ 910
0
votes
3
replies
668
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
updated 9.9 years ago by ▴ 50 • written 9.9 years ago by ★ 4.3k
0
votes
0
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589
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[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
9.9 years ago Halian Vilela ▴ 50
0
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1
reply
1.4k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 10.4 years ago by ★ 7.2k • written 10.4 years ago by ▴ 100
0
votes
0
replies
769
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription Annotation GO AnnotationData Organism BSgenome biomaRt BSgenome ChIPpeakAnno
10.4 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
717
views
[ENQUIRY] chIPpeakAnno annotatePeakInBatch
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
10.5 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
644
views
Call for help about your Chippeakanno R package
Annotation Cancer AnnotationData ChIPpeakAnno Annotation Cancer AnnotationData ChIPpeakAnno
10.6 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
755
views
Gene Name annotation with ChIPpeakAnno
Annotation AnnotationData annotate convert biomaRt Annotation AnnotationData annotate
10.7 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
647
views
ChIPpeakAnno bug?
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
10.9 years ago Julie Zhu ★ 4.3k
0
votes
7
replies
753
views
ChIPpeakAnno annotatePeakInBatch error message
GO AnnotationData GO AnnotationData
11.3 years ago Dario Strbenac ★ 1.5k
0
votes
3
replies
646
views
ChIPpeakAnno Critical Bug
AnnotationData AnnotationData
updated 11.4 years ago by ★ 4.3k • written 11.4 years ago by ★ 1.5k
0
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0
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548
views
Chippeakanno, maxgap =1000
AnnotationData AnnotationData
11.4 years ago Julie Zhu ★ 4.3k
0
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0
replies
687
views
ChIPpeakAnno Biomart Archive annotation querying
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
11.8 years ago Khademul Islam ▴ 30
0
votes
1
reply
952
views
ChIPpeakAnno Biomart annotation
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
updated 11.8 years ago by ★ 4.3k • written 11.8 years ago by ▴ 30
32 results • Page 1 of 1
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Answer: Reading vcf file with readVcf by James W. MacDonald 58k
Usually when you run out of RAM, you usually get an error saying that 'R couldn't allocate a vector of size <some number>'. When it just sa…
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What exactly do you mean by 'proportion of genic annotations'? One possibility would be to see what proportion of all the exons are covered…
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> Does this mean that there are seven genes in total that will have significant adjusted p-value? yes > i recall when multiple linea…
Answer: VST transformation and covariates in the TCGA TARGET GTEx dataset by Michael Love 34k
The above sounds fine to me. I do not recommend adding 1 to all expected counts for DESeq2. It is strange that every gene contains a …
Answer: Swish direction of comparison based on order of factors by Michael Love 34k
hi Jean, Thanks for the question, this wasn't explicitly stated in the documentation, so I've updated it, here are the new sections in m…
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Answer: Swish direction of comparison based on order of factors
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