Showing : annotationdata • reset
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Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 21 months ago by 66k • written 21 months ago by • 0
0
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2
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5.5k
views
Any tools to convert .gff to .gtf format
AnnotationData CrispRdesignR BSgenome
updated 21 months ago by ★ 1.6k • written 21 months ago by • 0
2
votes
10
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2.4k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 2.7 years ago by ★ 4.0k • written 2.7 years ago by • 0
3
votes
1
reply
2.3k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 2.8 years ago by 66k • written 2.8 years ago by • 0
2
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1
reply
1.6k
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 3.2 years ago by ★ 2.1k • written 3.2 years ago by ▴ 510
4
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6
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1.2k
views
Extremely big genes in annotation TxDb packages
annotation txdb AnnotationData Genetics
updated 4.0 years ago by 66k • written 4.0 years ago by ▴ 10
2
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0
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1.0k
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 5.1 years ago by • 0 • written 5.1 years ago by 3.9k
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0
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1.0k
views
News: ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub annotationdata ensembl gtf 2bit News
5.3 years ago shepherl 3.9k
1
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7
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1.1k
views
News: ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
5.7 years ago shepherl 3.9k
0
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0
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974
views
News: ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub ensembl gtf 2bit annotationdata News
5.9 years ago shepherl 3.9k
2
votes
1
reply
1.0k
views
How to get chip information from annotation databases
bioconductor annotationdata hgu133a
updated 6.3 years ago by 25k • written 6.3 years ago by ▴ 260
0
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3
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1.7k
views
Which annotationData package should I use?
annotationdata Rosetta/Merck Human RSTA Custom Affymetrix 2.0 microarray
updated 6.7 years ago by 66k • written 6.7 years ago by • 0
0
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3
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1.7k
views
Question about the ChIPpeakAnno:
ChIPchip Annotation AnnotationData ChIPchip Annotation AnnotationData
updated 7.0 years ago by • 0 • written 10.2 years ago by ★ 4.3k
1
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1
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1.2k
views
select function not working with annotation package; bug?
annotation annotationdata illuminaMousev1p1.db
updated 7.4 years ago by 66k • written 7.4 years ago by ★ 4.0k
3
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2
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1.5k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 8.6 years ago by 66k • written 8.6 years ago by • 0
1
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1
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1.3k
views
ChIPpeakAnno: Invalid row.names length in peaksNearBDP
Annotation AnnotationData Annotation AnnotationData
updated 9.8 years ago by ★ 4.3k • written 9.8 years ago by ▴ 30
0
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1
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1.8k
views
ChIPpeakAnno: Maxgap option in annotatePeakInBatch
Lung AnnotationData ChIPpeakAnno Lung AnnotationData ChIPpeakAnno
9.9 years ago Julie Zhu ★ 4.3k
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3
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1.5k
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TranscriptDb object to RangedData for ChIPpeakAnno
Annotation GO AnnotationData Organism BSgenome TranscriptDb convert BSgenome ChIPpeakAnno
10.9 years ago Alan Smith ▴ 150
0
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3
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1.8k
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Use ChIPpeakAnno to find two-sided nearest genes to a peak
AnnotationData annotate ChIPpeakAnno AnnotationData annotate ChIPpeakAnno
11.5 years ago Julie Zhu ★ 4.3k
0
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1
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1.1k
views
Question about ChIPpeakAnno R package
AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno
11.9 years ago Julie Zhu ★ 4.3k
0
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1
reply
1.0k
views
ChIPpeakAnno
AnnotationData AnnotationData
updated 12.0 years ago by ★ 4.3k • written 12.0 years ago by ★ 13k
0
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4
replies
2.2k
views
ChIPpeakAnno as.data.frame error
GO AnnotationData annotate convert ChIPpeakAnno GO AnnotationData annotate convert
updated 12.3 years ago by ★ 4.3k • written 12.3 years ago by ▴ 910
0
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3
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1.1k
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
updated 12.6 years ago by ▴ 50 • written 12.6 years ago by ★ 4.3k
0
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0
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952
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
12.6 years ago Halian Vilela ▴ 50
0
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1
reply
1.9k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 13.1 years ago by ★ 7.2k • written 13.1 years ago by ▴ 100
0
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0
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1.2k
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription Annotation GO AnnotationData Organism BSgenome biomaRt BSgenome ChIPpeakAnno
13.2 years ago Julie Zhu ★ 4.3k
0
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1
reply
1.1k
views
[ENQUIRY] chIPpeakAnno annotatePeakInBatch
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
13.3 years ago Julie Zhu ★ 4.3k
0
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0
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1.1k
views
Call for help about your Chippeakanno R package
Annotation Cancer AnnotationData ChIPpeakAnno Annotation Cancer AnnotationData ChIPpeakAnno
13.3 years ago Julie Zhu ★ 4.3k
0
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0
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1.1k
views
Gene Name annotation with ChIPpeakAnno
Annotation AnnotationData annotate convert biomaRt Annotation AnnotationData annotate
13.4 years ago Julie Zhu ★ 4.3k
0
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0
replies
1000
views
ChIPpeakAnno bug?
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
13.7 years ago Julie Zhu ★ 4.3k
0
votes
7
replies
1.5k
views
ChIPpeakAnno annotatePeakInBatch error message
GO AnnotationData GO AnnotationData
14.1 years ago Dario Strbenac ★ 1.5k
0
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3
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1.2k
views
ChIPpeakAnno Critical Bug
AnnotationData AnnotationData
updated 14.1 years ago by ★ 4.3k • written 14.1 years ago by ★ 1.5k
0
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0
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931
views
Chippeakanno, maxgap =1000
AnnotationData AnnotationData
14.1 years ago Julie Zhu ★ 4.3k
0
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0
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1.1k
views
ChIPpeakAnno Biomart Archive annotation querying
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
14.6 years ago Khademul Islam ▴ 30
0
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1
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1.5k
views
ChIPpeakAnno Biomart annotation
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
updated 14.6 years ago by ★ 4.3k • written 14.6 years ago by ▴ 30
35 results • Page 1 of 1
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Comment: gds in GEOmetadb 2023-06-26 version is empty by Frederico Moraes Ferreira ▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter by James W. MacDonald 66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat by Michael Love 42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter by adripel • 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2 by Michael Love 42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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