Showing : annotationdata • reset
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Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 8 months ago by 63k • written 8 months ago by • 0
0
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2
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2.3k
views
Any tools to convert .gff to .gtf format
AnnotationData CrispRdesignR BSgenome
updated 9 months ago by ★ 1.6k • written 9 months ago by • 0
2
votes
10
replies
1.5k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 19 months ago by ★ 3.6k • written 19 months ago by • 0
3
votes
1
reply
1.5k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 20 months ago by 63k • written 20 months ago by • 0
2
votes
1
reply
637
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 2.1 years ago by ★ 2.0k • written 2.1 years ago by ▴ 490
3
votes
6
replies
731
views
Extremely big genes in annotation TxDb packages
annotation txdb AnnotationData Genetics
updated 2.9 years ago by 63k • written 2.9 years ago by ▴ 10
2
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0
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615
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 4.1 years ago by • 0 • written 4.1 years ago by 3.5k
0
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0
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692
views
News: ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub annotationdata ensembl gtf 2bit News
4.3 years ago shepherl 3.5k
1
vote
7
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782
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News: ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
4.6 years ago shepherl 3.5k
0
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0
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688
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News: ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub ensembl gtf 2bit annotationdata News
4.8 years ago shepherl 3.5k
2
votes
1
reply
773
views
How to get chip information from annotation databases
bioconductor annotationdata hgu133a
updated 5.2 years ago by 25k • written 5.2 years ago by ▴ 260
0
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3
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1.3k
views
Which annotationData package should I use?
annotationdata Rosetta/Merck Human RSTA Custom Affymetrix 2.0 microarray
updated 5.6 years ago by 63k • written 5.6 years ago by • 0
0
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3
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1.3k
views
Question about the ChIPpeakAnno:
ChIPchip Annotation AnnotationData ChIPchip Annotation AnnotationData
updated 6.0 years ago by • 0 • written 9.1 years ago by ★ 4.3k
1
vote
1
reply
928
views
select function not working with annotation package; bug?
annotation annotationdata illuminaMousev1p1.db
updated 6.4 years ago by 63k • written 6.4 years ago by ★ 3.6k
3
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2
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1.3k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 7.5 years ago by 63k • written 7.5 years ago by • 0
1
vote
1
reply
998
views
ChIPpeakAnno: Invalid row.names length in peaksNearBDP
Annotation AnnotationData Annotation AnnotationData
updated 8.8 years ago by ★ 4.3k • written 8.8 years ago by ▴ 30
0
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1
reply
1.4k
views
ChIPpeakAnno: Maxgap option in annotatePeakInBatch
Lung AnnotationData ChIPpeakAnno Lung AnnotationData ChIPpeakAnno
8.8 years ago Julie Zhu ★ 4.3k
0
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3
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1.2k
views
TranscriptDb object to RangedData for ChIPpeakAnno
Annotation GO AnnotationData Organism BSgenome TranscriptDb convert BSgenome ChIPpeakAnno
9.9 years ago Alan Smith ▴ 150
0
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3
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1.4k
views
Use ChIPpeakAnno to find two-sided nearest genes to a peak
AnnotationData annotate ChIPpeakAnno AnnotationData annotate ChIPpeakAnno
10.5 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
811
views
Question about ChIPpeakAnno R package
AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno
10.8 years ago Julie Zhu ★ 4.3k
0
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1
reply
740
views
ChIPpeakAnno
AnnotationData AnnotationData
updated 11.0 years ago by ★ 4.3k • written 11.0 years ago by ★ 12k
0
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4
replies
1.9k
views
ChIPpeakAnno as.data.frame error
GO AnnotationData annotate convert ChIPpeakAnno GO AnnotationData annotate convert
updated 11.2 years ago by ★ 4.3k • written 11.2 years ago by ▴ 910
0
votes
3
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884
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
updated 11.6 years ago by ▴ 50 • written 11.6 years ago by ★ 4.3k
0
votes
0
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743
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
11.6 years ago Halian Vilela ▴ 50
0
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1
reply
1.7k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 12.1 years ago by ★ 7.2k • written 12.1 years ago by ▴ 100
0
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0
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976
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription Annotation GO AnnotationData Organism BSgenome biomaRt BSgenome ChIPpeakAnno
12.1 years ago Julie Zhu ★ 4.3k
0
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1
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867
views
[ENQUIRY] chIPpeakAnno annotatePeakInBatch
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
12.2 years ago Julie Zhu ★ 4.3k
0
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0
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793
views
Call for help about your Chippeakanno R package
Annotation Cancer AnnotationData ChIPpeakAnno Annotation Cancer AnnotationData ChIPpeakAnno
12.3 years ago Julie Zhu ★ 4.3k
0
votes
0
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916
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Gene Name annotation with ChIPpeakAnno
Annotation AnnotationData annotate convert biomaRt Annotation AnnotationData annotate
12.4 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
811
views
ChIPpeakAnno bug?
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
12.6 years ago Julie Zhu ★ 4.3k
0
votes
7
replies
985
views
ChIPpeakAnno annotatePeakInBatch error message
GO AnnotationData GO AnnotationData
13.0 years ago Dario Strbenac ★ 1.5k
0
votes
3
replies
826
views
ChIPpeakAnno Critical Bug
AnnotationData AnnotationData
updated 13.1 years ago by ★ 4.3k • written 13.1 years ago by ★ 1.5k
0
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0
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711
views
Chippeakanno, maxgap =1000
AnnotationData AnnotationData
13.1 years ago Julie Zhu ★ 4.3k
0
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0
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916
views
ChIPpeakAnno Biomart Archive annotation querying
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
13.5 years ago Khademul Islam ▴ 30
0
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1
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1.2k
views
ChIPpeakAnno Biomart annotation
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
updated 13.5 years ago by ★ 4.3k • written 13.5 years ago by ▴ 30
35 results • Page 1 of 1
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Answer: Extract Limma Adjusted Values for Plotting by James W. MacDonald 63k
You should use `removeBatchEffect` for that.
Comment: Interpret plot from DiffBind by Chris • 0
Thank you for the explanation! The purple (**gain**) in the control in the right bottom corner but on the y axis is labeled **loss** which …
Comment: Use with_go along with other filters in getBM function by RuBBiT0 ▴ 10
Thank you! I think that makes much sense to me.
Comment: Interpret plot from DiffBind by Rory Stark ★ 4.9k
Not necessarily. It look to me like there is reconfiguring going on, with some chromatin that was open in the control becoming closed (the …
Comment: Interpret plot from DiffBind by Chris • 0
Thanks Rory! So that means the diseased sample has chromatin more open then the control one, is that correct?
Votes
Answer: NA transcript values in my Txdb
Comment: Interpret plot from DiffBind
Answer: Use with_go along with other filters in getBM function
Answer: Use with_go along with other filters in getBM function
Answer: Interpret plot from DiffBind
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