Showing : ChIPpeakAnno • reset
0
votes
2
replies
1.6k
views
ChIPpeakAnno
annotate ChIPpeakAnno annotate ChIPpeakAnno
12.8 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.7k
views
ChIPpeakAnno query
Microarray Annotation Cancer Prostate annotate affy convert biomaRt ChIPpeakAnno Cancer
updated 12.8 years ago by ▴ 10 • written 12.8 years ago by ★ 4.3k
0
votes
0
replies
3.9k
views
build TSS from biomaRt for ChIPpeakAnno, how to decide the mm9 and mm10 assembly?
Mus musculus biomaRt ChIPpeakAnno Mus musculus biomaRt ChIPpeakAnno
12.9 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
989
views
ChIPpeakAnno question--peak aggregation over bins from TSS
ChIPpeakAnno ChIPpeakAnno
13.0 years ago Julie Zhu ★ 4.3k
0
votes
5
replies
1.5k
views
ChIPpeakAnno question--peak aggregation over bins from TSS
ChIPpeakAnno ChIPpeakAnno
updated 13.0 years ago by ★ 4.3k • written 13.0 years ago by ▴ 40
0
votes
3
replies
2.3k
views
Use ChIPpeakAnno to find two-sided nearest genes to a peak
AnnotationData annotate ChIPpeakAnno AnnotationData annotate ChIPpeakAnno
13.1 years ago Julie Zhu ★ 4.3k
0
votes
7
replies
2.1k
views
Problem loading BED file with BED2RangedData
GO ChIPpeakAnno GO ChIPpeakAnno
updated 13.1 years ago by ★ 1.3k • written 13.1 years ago by ▴ 280
0
votes
0
replies
1.1k
views
ChIPpeakAnno
Annotation Category ChIPpeakAnno Annotation Category ChIPpeakAnno
13.2 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
1.7k
views
ChIPpeakAnno problem w getAllPeakSequence()
GO annotate ChIPpeakAnno GO annotate ChIPpeakAnno
updated 13.3 years ago by ★ 1.3k • written 13.3 years ago by ▴ 50
0
votes
0
replies
1.5k
views
ChipPeakAnno - slightly different results between makeVennDiagram and findPeakOverlaps
Genetics GO ChIPpeakAnno Genetics GO ChIPpeakAnno
13.3 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
1.5k
views
ChipPeakAnno - slightly different results between makeVennDiagram and findPeakOverlaps
Genetics ChIPpeakAnno Genetics ChIPpeakAnno
updated 13.3 years ago by ★ 1.3k • written 13.3 years ago by ▴ 510
0
votes
0
replies
1.4k
views
question regarding ChIPPeakAnno use
Annotation annotate GLAD ChIPpeakAnno Annotation annotate GLAD ChIPpeakAnno
13.4 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
1.6k
views
RE ChIPPEAKANNO
miRNA Genetics ChIPpeakAnno miRNA Genetics ChIPpeakAnno
13.4 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
1.6k
views
ChIPpeakAnno
convert ChIPpeakAnno convert ChIPpeakAnno
13.4 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
1.5k
views
Question about ChIPpeakAnno R package
AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno
13.5 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
1.2k
views
ChIPpeakAnno to find peaks nearest to miRNA
miRNA Annotation GO BSgenome biomaRt BSgenome ChIPpeakAnno miRNA Annotation GO BSgenome
13.5 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
1.7k
views
more question about makeVennDiagram
GO ChIPpeakAnno GO ChIPpeakAnno
13.5 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
2.3k
views
ChIPpeakAnno to find peaks nearest to miRNA
miRNA GO BSgenome BSgenome ChIPpeakAnno miRNA GO BSgenome BSgenome ChIPpeakAnno
updated 13.5 years ago by ★ 4.3k • written 13.5 years ago by ▴ 350
0
votes
0
replies
1.1k
views
ChIPpeakAnno - Annotation of miRNA
miRNA GO BSgenome BSgenome ChIPpeakAnno miRNA GO BSgenome BSgenome ChIPpeakAnno
13.5 years ago Paolo Kunderfranco ▴ 350
0
votes
5
replies
1.9k
views
[ChIPpeakAnno] Can not start ChIPpeakAnno after update to version 2.5.9
ChIPpeakAnno ChIPpeakAnno
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 90
0
votes
1
reply
1.0k
views
ChIPPeakAnno query (overlaps)
ChIPpeakAnno ChIPpeakAnno
13.7 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.4k
views
ChIPpeakAnno: Inquiry for Worm Analysis
Annotation GO annotate convert ChIPpeakAnno Annotation GO annotate convert ChIPpeakAnno
13.9 years ago • updated 13.8 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.1k
views
ChIPpeakAnno - Request of information
Annotation annotate ChIPpeakAnno Annotation annotate ChIPpeakAnno
updated 13.8 years ago by ★ 1.3k • written 13.8 years ago by ★ 4.3k
0
votes
2
replies
1.4k
views
ChIPpeakAnno findVennCounts
ChIPpeakAnno ChIPpeakAnno
updated 13.8 years ago by ▴ 10 • written 13.8 years ago by ★ 4.3k
0
votes
4
replies
1.7k
views
question regarding ChIPPeakAnno use
ChIPpeakAnno ChIPpeakAnno
updated 13.8 years ago by ▴ 20 • written 13.8 years ago by ★ 4.3k
0
votes
1
reply
1.2k
views
ChIPpeakAnno on pathway enrichment
Pathways GO ChIPpeakAnno Pathways GO ChIPpeakAnno
updated 13.9 years ago by ▴ 240 • written 13.9 years ago by ★ 4.3k
0
votes
0
replies
656
views
ChipPeakAnno question about file conversion
convert ChIPpeakAnno convert ChIPpeakAnno
13.9 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
2.7k
views
ChIPpeakAnno as.data.frame error
GO AnnotationData annotate convert ChIPpeakAnno GO AnnotationData annotate convert
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ▴ 910
0
votes
2
replies
2.0k
views
ChIPpeakAnno
GO BSgenome annotate BSgenome ChIPpeakAnno GO BSgenome annotate BSgenome ChIPpeakAnno
updated 13.9 years ago by ▴ 10 • written 13.9 years ago by ▴ 10
0
votes
3
replies
1.1k
views
ChiPpeakAnno: findOverlappingPeaks: running time
GO ChIPpeakAnno GO ChIPpeakAnno
updated 14.0 years ago by ★ 4.3k • written 14.0 years ago by ★ 13k
0
votes
1
reply
1.1k
views
ChIPpeakAnno, makeVennDiagram
Transcription ChIPpeakAnno Transcription ChIPpeakAnno
14.2 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
966
views
ChIPpeakAnno - for genes with multiple isoforms
Transcription Annotation annotate ChIPpeakAnno Transcription Annotation annotate
14.3 years ago Julie Zhu ★ 4.3k
0
votes
12
replies
3.2k
views
more stupid *Ranges questions...
Transcription ChIPpeakAnno GenomicRanges Transcription ChIPpeakAnno GenomicRanges
updated 14.4 years ago by ★ 11k • written 14.4 years ago by ★ 4.2k
0
votes
1
reply
1.1k
views
[Bioc-sig-seq] ChIPpeakAnno annotatePeakInBatch problems in R2.13/ChIPpeakAnno_1.8.0 and R2.13/ChIPpeakAnno_2.0.2
Annotation GO BSgenome BSgenome ChIPpeakAnno Annotation GO BSgenome BSgenome ChIPpeakAnno
14.4 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.9k
views
ChIPpeakAnno, getAnnotation question
Annotation microRNA ChIPpeakAnno Annotation microRNA ChIPpeakAnno
14.4 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
1.6k
views
chippeakanno:::addGeneID for adding gene symbol etc. to annotatedPeak or enrichedGO
Annotation convert biomaRt bridge ChIPpeakAnno Annotation convert biomaRt bridge
updated 14.4 years ago by ▴ 810 • written 14.5 years ago by ★ 4.3k
0
votes
1
reply
1.3k
views
Regarding ChIPpeakAnno::getEnrichedGO function
GO ChIPpeakAnno GO ChIPpeakAnno
updated 14.5 years ago by ▴ 20 • written 14.5 years ago by ★ 4.3k
0
votes
0
replies
1.2k
views
ChIPpeakAnno package - filter annotatedPeak for GO enrichment analysis
ChIPSeq Annotation GO biomaRt chipseq ChIPpeakAnno ChIPSeq Annotation GO biomaRt chipseq
14.6 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.5k
views
Hypergeometric test in ChIPpeakAnno
annotate ChIPpeakAnno annotate ChIPpeakAnno
updated 14.6 years ago by ▴ 20 • written 14.6 years ago by ★ 4.3k
0
votes
0
replies
1.1k
views
Information needed for ChIPpeakAnno package
annotate ChIPpeakAnno annotate ChIPpeakAnno
14.6 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
953
views
choice of biomaRt feature from annotatePeakInBatch
ChIPSeq Annotation biomaRt chipseq ChIPpeakAnno ChIPSeq Annotation biomaRt chipseq
14.6 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
942
views
ChIPpeakAnno
annotate IRanges ChIPpeakAnno annotate IRanges ChIPpeakAnno
14.6 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
863
views
IRanges question!
annotate IRanges ChIPpeakAnno annotate IRanges ChIPpeakAnno
updated 14.6 years ago by ★ 11k • written 14.6 years ago by ▴ 290
0
votes
0
replies
1.0k
views
4-way venn diagram with ChIPpeakAnno
ChIPpeakAnno ChIPpeakAnno
14.6 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
1.1k
views
Create an non-mainstream organism-specific database for ChIP-chip analysis
Organism ChIPpeakAnno Organism ChIPpeakAnno
updated 14.7 years ago by ★ 7.2k • written 14.7 years ago by ▴ 40
0
votes
0
replies
1.5k
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription Annotation GO AnnotationData Organism BSgenome biomaRt BSgenome ChIPpeakAnno
14.7 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
1.5k
views
An error while installing RWebService
limma biomaRt RWebServices IRanges microRNA SJava ChIPpeakAnno limma biomaRt RWebServices
updated 14.9 years ago by ★ 8.2k • written 14.9 years ago by ▴ 120
0
votes
1
reply
1.4k
views
[ENQUIRY] chIPpeakAnno annotatePeakInBatch
GO AnnotationData ChIPpeakAnno GO AnnotationData ChIPpeakAnno
14.9 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
1.4k
views
Help on ChIPpeakAnno
probe ChIPpeakAnno probe ChIPpeakAnno
14.9 years ago Prashantha Hebbar ▴ 260
0
votes
0
replies
1.4k
views
Call for help about your Chippeakanno R package
Annotation Cancer AnnotationData ChIPpeakAnno Annotation Cancer AnnotationData ChIPpeakAnno
14.9 years ago Julie Zhu ★ 4.3k
179 results • Page 3 of 4
Recent ...
Replies
Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Awards • All
Popular Question to Lluís Revilla Sancho ▴ 760
Popular Question to nromerov • 0
Popular Question to Thomas Girke ★ 1.7k
Teacher to Gordon Smyth 53k
Popular Question to Stephanie M. Gogarten ▴ 890
Locations • All
WEHI, Melbourne, Australia, 1 hour ago
United States, 1 hour ago
United States, 2 hours ago
Chile, 4 hours ago
The city by the bay, 5 hours ago
Traffic: 951 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6