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annotationdata
•
reset
0
votes
7
replies
1.4k
views
ChIPpeakAnno annotatePeakInBatch error message
GO
AnnotationData
GO
AnnotationData
13.9 years ago
Dario Strbenac
★ 1.5k
0
votes
3
replies
1.8k
views
Use ChIPpeakAnno to find two-sided nearest genes to a peak
AnnotationData
annotate
ChIPpeakAnno
AnnotationData
annotate
ChIPpeakAnno
11.4 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
5.1k
views
Any tools to convert .gff to .gtf format
AnnotationData
CrispRdesignR
BSgenome
updated 20 months ago by
Malcolm Cook
★ 1.6k • written 20 months ago by
Manoj Kumar R
• 0
0
votes
3
replies
1.5k
views
TranscriptDb object to RangedData for ChIPpeakAnno
Annotation
GO
AnnotationData
Organism
BSgenome
TranscriptDb
convert
BSgenome
ChIPpeakAnno
10.8 years ago
Alan Smith
▴ 150
0
votes
3
replies
1.7k
views
Question about the ChIPpeakAnno:
ChIPchip
Annotation
AnnotationData
ChIPchip
Annotation
AnnotationData
updated 6.9 years ago by
jinj
• 0 • written 10.0 years ago by
Julie Zhu
★ 4.3k
0
votes
3
replies
1.1k
views
ChIPpeakAnno Critical Bug
AnnotationData
AnnotationData
updated 14.0 years ago by
Julie Zhu
★ 4.3k • written 14.0 years ago by
Dario Strbenac
★ 1.5k
0
votes
1
reply
1.5k
views
ChIPpeakAnno Biomart annotation
Annotation
GO
AnnotationData
BSgenome
biomaRt
BSgenome
ChIPpeakAnno
Annotation
GO
biomaRt
updated 14.4 years ago by
Julie Zhu
★ 4.3k • written 14.4 years ago by
Khademul Islam
▴ 30
0
votes
1
reply
600
views
Annotation data packages for plant parasitic nematodes
AnnotationData
Annotation
updated 19 months ago by
James W. MacDonald
65k • written 19 months ago by
Hassanaly
• 0
0
votes
1
reply
1.7k
views
ChIPpeakAnno: Maxgap option in annotatePeakInBatch
Lung
AnnotationData
ChIPpeakAnno
Lung
AnnotationData
ChIPpeakAnno
9.7 years ago
Julie Zhu
★ 4.3k
1
vote
1
reply
1.2k
views
ChIPpeakAnno: Invalid row.names length in peaksNearBDP
Annotation
AnnotationData
Annotation
AnnotationData
updated 9.7 years ago by
Julie Zhu
★ 4.3k • written 9.7 years ago by
Jens Preussner
▴ 30
3
votes
2
replies
1.5k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi
mouse4302
affymetrixchip
annotationdata
R
updated 8.5 years ago by
James W. MacDonald
65k • written 8.5 years ago by
koreebay
• 0
1
vote
1
reply
1.2k
views
select function not working with annotation package; bug?
annotation
annotationdata
illuminaMousev1p1.db
updated 7.3 years ago by
James W. MacDonald
65k • written 7.3 years ago by
Guido Hooiveld
★ 3.9k
0
votes
3
replies
1.6k
views
Which annotationData package should I use?
annotationdata
Rosetta/Merck Human RSTA Custom Affymetrix 2.0 microarray
updated 6.6 years ago by
James W. MacDonald
65k • written 6.6 years ago by
peirinl
• 0
2
votes
1
reply
1.0k
views
How to get chip information from annotation databases
bioconductor
annotationdata
hgu133a
updated 6.1 years ago by
Martin Morgan
25k • written 6.1 years ago by
Agaz Hussain Wani
▴ 260
4
votes
6
replies
1.2k
views
Extremely big genes in annotation TxDb packages
annotation
txdb
AnnotationData
Genetics
updated 3.8 years ago by
James W. MacDonald
65k • written 3.8 years ago by
epibio
▴ 10
2
votes
1
reply
1.4k
views
Retrieve gene description with ensembldb
biomaRt
ensembldb
AnnotationData
updated 3.1 years ago by
Johannes Rainer
★ 2.0k • written 3.1 years ago by
António Miguel de Jesus Domingues
▴ 510
2
votes
10
replies
2.3k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter
annotationTools
AnnotationHub
AnnotationData
updated 2.5 years ago by
Guido Hooiveld
★ 3.9k • written 2.5 years ago by
Javan Okendo
• 0
3
votes
1
reply
2.2k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData
AnnotationDbi
annotation
updated 2.6 years ago by
James W. MacDonald
65k • written 2.6 years ago by
kstachelek
• 0
0
votes
1
reply
1.0k
views
[ENQUIRY] chIPpeakAnno annotatePeakInBatch
GO
AnnotationData
ChIPpeakAnno
GO
AnnotationData
ChIPpeakAnno
13.2 years ago
Julie Zhu
★ 4.3k
0
votes
1
reply
1.9k
views
Having trouble with new brainarray CDF
Microarray
Annotation
AnnotationData
AffymetrixChip
hgu133a2
cdf
probe
graph
AnnotationDbi
updated 13.0 years ago by
Marc Carlson
★ 7.2k • written 13.0 years ago by
Martha Behnke
▴ 100
0
votes
3
replies
1.1k
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData
AnnotationData
updated 12.5 years ago by
Halian Vilela
▴ 50 • written 12.5 years ago by
Julie Zhu
★ 4.3k
0
votes
4
replies
2.2k
views
ChIPpeakAnno as.data.frame error
GO
AnnotationData
annotate
convert
ChIPpeakAnno
GO
AnnotationData
annotate
convert
updated 12.2 years ago by
Julie Zhu
★ 4.3k • written 12.2 years ago by
Mark Cowley
▴ 910
0
votes
1
reply
981
views
ChIPpeakAnno
AnnotationData
AnnotationData
updated 11.9 years ago by
Julie Zhu
★ 4.3k • written 11.9 years ago by
Guest User
★ 13k
0
votes
1
reply
1.1k
views
Question about ChIPpeakAnno R package
AnnotationData
annotate
ChIPpeakAnno
BayesPeak
AnnotationData
annotate
ChIPpeakAnno
11.7 years ago
Julie Zhu
★ 4.3k
0
votes
0
replies
1.1k
views
Gene Name annotation with ChIPpeakAnno
Annotation
AnnotationData
annotate
convert
biomaRt
Annotation
AnnotationData
annotate
13.3 years ago
Julie Zhu
★ 4.3k
0
votes
0
replies
1.0k
views
Call for help about your Chippeakanno R package
Annotation
Cancer
AnnotationData
ChIPpeakAnno
Annotation
Cancer
AnnotationData
ChIPpeakAnno
13.2 years ago
Julie Zhu
★ 4.3k
0
votes
0
replies
984
views
ChIPpeakAnno bug?
GO
AnnotationData
ChIPpeakAnno
GO
AnnotationData
ChIPpeakAnno
13.5 years ago
Julie Zhu
★ 4.3k
0
votes
0
replies
948
views
News:
ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
ensembl
gtf
2bit
annotationdata
News
5.8 years ago
shepherl
3.9k
1
vote
7
replies
1.1k
views
News:
ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
5.5 years ago
shepherl
3.9k
0
votes
0
replies
935
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData
AnnotationData
12.5 years ago
Halian Vilela
▴ 50
0
votes
0
replies
980
views
News:
ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
annotationdata
ensembl
gtf
2bit
News
5.2 years ago
shepherl
3.9k
2
votes
0
replies
983
views
News:
ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
updated 5.0 years ago by
nguyenlieuduoc
• 0 • written 5.0 years ago by
shepherl
3.8k
0
votes
0
replies
1.1k
views
ChIPpeakAnno Biomart Archive annotation querying
Annotation
GO
AnnotationData
BSgenome
biomaRt
BSgenome
ChIPpeakAnno
Annotation
GO
biomaRt
14.4 years ago
Khademul Islam
▴ 30
0
votes
0
replies
1.2k
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription
Annotation
GO
AnnotationData
Organism
BSgenome
biomaRt
BSgenome
ChIPpeakAnno
13.0 years ago
Julie Zhu
★ 4.3k
0
votes
0
replies
913
views
Chippeakanno, maxgap =1000
AnnotationData
AnnotationData
14.0 years ago
Julie Zhu
★ 4.3k
35 results • Page
1 of 1
Recent ...
Replies
Answer: DESeq2 v1.35.0
by
Michael Love
41k
That is not a release (odd 'y' digit). See Bioconductor help pages: https://contributions.bioconductor.org/description.html#description-ver…
Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i
by
James W. MacDonald
65k
Please don't piggyback on posts from 2.3 years ago. If you have a question, post as a new question.
Answer: DESeq2 v1.35.0
by
James W. MacDonald
65k
Odd release versions indicate a devel version, which upon release is incremented to the next even version, so you won't be able to find tha…
Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i
by
fatinataly
• 0
I tried also with oligo does not work, any other suggestion?
Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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