Showing : AnnotationData • reset
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Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 14 months ago by 64k • written 14 months ago by • 0
0
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2
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3.8k
views
Any tools to convert .gff to .gtf format
AnnotationData CrispRdesignR BSgenome
updated 15 months ago by ★ 1.6k • written 15 months ago by • 0
2
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10
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1.9k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 2.1 years ago by ★ 3.8k • written 2.1 years ago by • 0
3
votes
1
reply
1.9k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 2.2 years ago by 64k • written 2.2 years ago by • 0
2
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1
reply
963
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 2.6 years ago by ★ 2.0k • written 2.6 years ago by ▴ 490
3
votes
6
replies
960
views
Extremely big genes in annotation TxDb packages
annotation txdb AnnotationData Genetics
updated 3.4 years ago by 64k • written 3.4 years ago by ▴ 10
2
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0
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827
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 4.6 years ago by • 0 • written 4.6 years ago by 3.6k
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847
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News: ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub annotationdata ensembl gtf 2bit News
4.8 years ago shepherl 3.6k
1
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7
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929
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News: ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
5.1 years ago shepherl 3.6k
0
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0
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821
views
News: ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub ensembl gtf 2bit annotationdata News
5.3 years ago shepherl 3.6k
2
votes
1
reply
905
views
How to get chip information from annotation databases
bioconductor annotationdata hgu133a
updated 5.7 years ago by 25k • written 5.7 years ago by ▴ 260
0
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3
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1.5k
views
Which annotationData package should I use?
annotationdata Rosetta/Merck Human RSTA Custom Affymetrix 2.0 microarray
updated 6.1 years ago by 64k • written 6.1 years ago by • 0
0
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3
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1.6k
views
Question about the ChIPpeakAnno:
ChIPchip Annotation AnnotationData ChIPchip Annotation AnnotationData
updated 6.5 years ago by • 0 • written 9.6 years ago by ★ 4.3k
1
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1
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1.0k
views
select function not working with annotation package; bug?
annotation annotationdata illuminaMousev1p1.db
updated 6.8 years ago by 64k • written 6.8 years ago by ★ 3.8k
3
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2
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1.4k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 8.0 years ago by 64k • written 8.0 years ago by • 0
1
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1
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1.1k
views
ChIPpeakAnno: Invalid row.names length in peaksNearBDP
Annotation AnnotationData Annotation AnnotationData
updated 9.3 years ago by ★ 4.3k • written 9.3 years ago by ▴ 30
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1
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1.6k
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ChIPpeakAnno: Maxgap option in annotatePeakInBatch
Lung AnnotationData ChIPpeakAnno Lung AnnotationData ChIPpeakAnno
9.3 years ago Julie Zhu ★ 4.3k
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3
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1.4k
views
TranscriptDb object to RangedData for ChIPpeakAnno
Annotation GO AnnotationData Organism BSgenome TranscriptDb convert BSgenome ChIPpeakAnno
10.4 years ago Alan Smith ▴ 150
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3
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1.7k
views
Use ChIPpeakAnno to find two-sided nearest genes to a peak
AnnotationData annotate ChIPpeakAnno AnnotationData annotate ChIPpeakAnno
11.0 years ago Julie Zhu ★ 4.3k
0
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1
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941
views
Question about ChIPpeakAnno R package
AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno
11.3 years ago Julie Zhu ★ 4.3k
0
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1
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854
views
ChIPpeakAnno
AnnotationData AnnotationData
updated 11.5 years ago by ★ 4.3k • written 11.5 years ago by ★ 12k
0
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4
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2.0k
views
ChIPpeakAnno as.data.frame error
GO AnnotationData annotate convert ChIPpeakAnno GO AnnotationData annotate convert
updated 11.7 years ago by ★ 4.3k • written 11.7 years ago by ▴ 910
0
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3
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988
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
updated 12.1 years ago by ▴ 50 • written 12.1 years ago by ★ 4.3k
0
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0
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853
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[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData AnnotationData
12.1 years ago Halian Vilela ▴ 50
0
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1
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1.8k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 12.6 years ago by ★ 7.2k • written 12.6 years ago by ▴ 100
0
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0
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1.1k
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription Annotation GO AnnotationData Organism BSgenome biomaRt BSgenome ChIPpeakAnno
12.6 years ago Julie Zhu ★ 4.3k
0
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1
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949
views
[ENQUIRY] chIPpeakAnno annotatePeakInBatch
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
12.7 years ago Julie Zhu ★ 4.3k
0
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0
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934
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Call for help about your Chippeakanno R package
Annotation Cancer AnnotationData ChIPpeakAnno Annotation Cancer AnnotationData ChIPpeakAnno
12.8 years ago Julie Zhu ★ 4.3k
0
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0
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992
views
Gene Name annotation with ChIPpeakAnno
Annotation AnnotationData annotate convert biomaRt Annotation AnnotationData annotate
12.9 years ago Julie Zhu ★ 4.3k
0
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0
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899
views
ChIPpeakAnno bug?
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
13.1 years ago Julie Zhu ★ 4.3k
0
votes
7
replies
1.2k
views
ChIPpeakAnno annotatePeakInBatch error message
GO AnnotationData GO AnnotationData
13.5 years ago Dario Strbenac ★ 1.5k
0
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3
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1.0k
views
ChIPpeakAnno Critical Bug
AnnotationData AnnotationData
updated 13.6 years ago by ★ 4.3k • written 13.5 years ago by ★ 1.5k
0
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0
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800
views
Chippeakanno, maxgap =1000
AnnotationData AnnotationData
13.6 years ago Julie Zhu ★ 4.3k
0
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0
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988
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ChIPpeakAnno Biomart Archive annotation querying
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
14.0 years ago Khademul Islam ▴ 30
0
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1
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1.4k
views
ChIPpeakAnno Biomart annotation
Annotation GO AnnotationData BSgenome biomaRt BSgenome ChIPpeakAnno Annotation GO biomaRt
updated 14.0 years ago by ★ 4.3k • written 14.0 years ago by ▴ 30
35 results • Page 1 of 1
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Comment: DESeq: Error in DESeqDataSet(se, design = design, ignoreRank) : some values i by ATpoint ★ 3.6k
What is the output of below_zero <- apply(miRNA_counts < 0, 1, sum) > 0 miRNA_counts[below_zero,,drop=FALSE]
Comment: Problem loading HDF5Array in R 4.3.2 by Mike Smith ★ 6.2k
Based on the error message this looks like the "invalid permissions" are referring to something in memory rather than your file system. If…
Comment: Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and by Aastha Kapoor • 0
After several attempts the code has worked. I connected to a faster internet connection. set the timeout (1000000) and run the command. I …
Comment: DESeq2 estimateSizeFactors iterate takes too long by Karthik • 0
Hello, I agree with you, and we are in process of working with collaborators, but I wanted to get a general opinion on the data and get a …
Comment: It's possible to use clusterProfiler without an annotationDBI package by Guido Hooiveld ★ 3.8k
Code to show it works: > library(clusterProfiler) > > ## use provided 10 IDs, plus as last one add ID that has a GO annotati…
Votes
Comment: Ensembl down???
Answer: Limma/DESeq2 for unbalanced nested design (paired samples)
Result from GSEA for non-model organism not as expected
Comment: DESeq2 estimateSizeFactors iterate takes too long
Answer: DESeq2 estimateSizeFactors iterate takes too long
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