Showing : ChIPpeakAnno • reset
9
votes
16
replies
3.1k
views
How to apply ChIPpeakAnno to your Granger object to annotate the peaks?
ChIPpeakAnno
2.7 years ago Chris ▴ 20
5
votes
15
replies
4.5k
views
nearest genes using TxDb.Hsapiens.UCSC.hg19
txdb.hsapiens.ucsc.hg19.knowngene ChIPpeakAnno
updated 9.5 years ago by ★ 4.3k • written 9.5 years ago by ▴ 140
2
votes
14
replies
2.6k
views
ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno ChIPSeq
updated 2.3 years ago by 68k • written 2.3 years ago by ▴ 10
4
votes
12
replies
3.4k
views
Curious behaviour of ChIPpeakAnno
chippeakanno
updated 11.1 years ago by ★ 1.3k • written 11.1 years ago by ▴ 20
0
votes
12
replies
3.2k
views
more stupid *Ranges questions...
Transcription ChIPpeakAnno GenomicRanges Transcription ChIPpeakAnno GenomicRanges
updated 14.3 years ago by ★ 11k • written 14.3 years ago by ★ 4.2k
2
votes
10
replies
4.4k
views
ChIPpeakAnno, MACS format annotation
bioconductor ChIPpeakAnno
updated 6.9 years ago by ★ 4.3k • written 8.7 years ago by ▴ 30
22
votes
10
replies
8.4k
views
Error in GRanges: could not find symbol "recursive" in environment of the generic function
granges chippeakanno
updated 8.8 years ago by ▴ 10 • written 8.8 years ago by ▴ 80
1
vote
9
replies
4.8k
views
ChIPpeakAnno: findOverlapsOfPeaks keep GRanges metadata
chippeakanno findOverlapsOfPeaks
updated 10.6 years ago by ▴ 240 • written 10.6 years ago by ▴ 30
7
votes
9
replies
3.1k
views
counts of overlapping peaks using findOverlapOfPeaks from ChIPpeakAnno
chippeakanno
updated 5.3 years ago by ★ 4.3k • written 5.3 years ago by ▴ 140
0
votes
8
replies
2.2k
views
ChIPpeakAnno Strandedness and distance calculation
Annotation Cancer ChIPpeakAnno Annotation Cancer ChIPpeakAnno
updated 15.6 years ago by ★ 1.6k • written 15.6 years ago by ★ 4.3k
0
votes
7
replies
2.4k
views
ChIPpeakAnno::getEnrichedGo crashes but I don't know why
annotate ChIPpeakAnno annotate ChIPpeakAnno
updated 14.9 years ago by ★ 4.3k • written 15.0 years ago by ▴ 40
3
votes
7
replies
1.7k
views
Genes in open chromatin region
ChIPpeakAnno DiffBind
written 2.3 years ago by ▴ 20
2
votes
7
replies
3.6k
views
ChIPpeakAnno-problem exporting data due to "arguments imply differing number of rows"
chippeakanno
updated 9.0 years ago by ★ 4.3k • written 9.0 years ago by • 0
0
votes
7
replies
2.0k
views
[Bioc-sig-seq] ChIPpeakAnno annotatePeakInBatch function
Annotation GO BSgenome BSgenome ChIPpeakAnno Annotation GO BSgenome BSgenome ChIPpeakAnno
updated 15.8 years ago by ▴ 310 • written 15.8 years ago by ★ 4.3k
0
votes
7
replies
2.3k
views
ChIPpeakAnno overlap peaks with TSS returns more than TSS overlap
chippeakanno chipseq R
updated 7.2 years ago by ★ 1.3k • written 7.2 years ago by • 0
0
votes
7
replies
2.0k
views
Problem loading BED file with BED2RangedData
GO ChIPpeakAnno GO ChIPpeakAnno
updated 13.0 years ago by ★ 1.3k • written 13.0 years ago by ▴ 280
2
votes
6
replies
3.8k
views
Problem converting a bed file to granges using togranges chippeakanno
ChIPpeakAnno
updated 3.9 years ago by ▴ 70 • written 3.9 years ago by • 0
3
votes
6
replies
2.3k
views
ChIP peak annotation: how to get all genes that overlap each peak?
ChIP-seq chippeakanno chipseeker
7.4 years ago 94133 • 0
1
vote
6
replies
2.4k
views
Annotation by CHIPeakAnno tool
ChIPpeakAnno
4.5 years ago Arunima ▴ 10
0
votes
6
replies
2.2k
views
Question RE: getEnrichedGo in ChIPpeakAnno package
Yeast ChIPpeakAnno Starr Yeast ChIPpeakAnno Starr
updated 15.5 years ago by ★ 4.3k • written 15.5 years ago by ▴ 410
1
vote
6
replies
2.0k
views
how does "maxgap" in ChIPpeakAnno working?
ChIPpeakAnno
6.8 years ago ngs06 ▴ 20
0
votes
5
replies
1.7k
views
Get ChIPpeakAnno to report total number of covered bases in VennDiagrams instead of (or in addition to) regions
chippeakanno
updated 10.9 years ago by ★ 1.3k • written 10.9 years ago by ▴ 20
3
votes
5
replies
4.4k
views
Error with ChIPpeakAnno Ensembl annotation
ChIPpeakAnno genomicfeatures
updated 9.1 years ago by ★ 4.3k • written 9.1 years ago by ▴ 370
0
votes
5
replies
1.5k
views
ChIPpeakAnno question--peak aggregation over bins from TSS
ChIPpeakAnno ChIPpeakAnno
updated 12.9 years ago by ★ 4.3k • written 12.9 years ago by ▴ 40
0
votes
5
replies
1.9k
views
Query on ChipPeakAnno: AnnotatePeakinBatch input
Annotation Cancer ChIPpeakAnno Annotation Cancer ChIPpeakAnno
updated 12.0 years ago by ▴ 30 • written 12.0 years ago by ★ 4.3k
4
votes
5
replies
2.2k
views
ChIPpeakAnno getAnnotation request fail
chippeakanno biomart ensembl
9.9 years ago igor ▴ 50
1
vote
5
replies
1.8k
views
ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
2.1 years ago ilaria.maurizio • 0
0
votes
5
replies
1.9k
views
[ChIPpeakAnno] Can not start ChIPpeakAnno after update to version 2.5.9
ChIPpeakAnno ChIPpeakAnno
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 90
0
votes
4
replies
1.6k
views
ChIPpeakAnno
convert ChIPpeakAnno convert ChIPpeakAnno
13.3 years ago Julie Zhu ★ 4.3k
1
vote
4
replies
2.0k
views
ChIPpeakAnno binOverGene error
chippeakanno binOverGene
updated 8.0 years ago by ★ 1.3k • written 8.1 years ago by • 0
5
votes
4
replies
5.9k
views
What are out-of-bound ranges? Is it necessary to get rid of them?
r ChIPpeakAnno
8.7 years ago • updated 8.4 years ago salamandra ▴ 20
0
votes
4
replies
1.6k
views
more question about makeVennDiagram
GO ChIPpeakAnno GO ChIPpeakAnno
13.4 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
1.8k
views
about ChIPpeakAnno
Annotation ChIPpeakAnno Annotation ChIPpeakAnno
15.3 years ago • updated 15.2 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
1.7k
views
question regarding ChIPPeakAnno use
ChIPpeakAnno ChIPpeakAnno
updated 13.7 years ago by ▴ 20 • written 13.8 years ago by ★ 4.3k
0
votes
4
replies
1.5k
views
Suggestion for a small change to ChIPpeakAnno
ChIPpeakAnno ChIPpeakAnno
11.5 years ago • updated 11.4 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 13.8 years ago by ★ 4.3k • written 13.8 years ago by ▴ 910
0
votes
4
replies
2.8k
views
Error in .order_seqlevels(chrom_sizes[, "chrom"])
ChIPpeakAnno
4.1 years ago Tongjun • 0
0
votes
4
replies
1.8k
views
chippeakanno file reading error
ChiPpeakAnno
6.7 years ago saddamhusain77 • 0
2
votes
4
replies
2.2k
views
ChIPpeakAnno annotatePeakInBatch output
chippeakanno
9.9 years ago igor ▴ 50
0
votes
3
replies
1.5k
views
ChipPeakAnno - slightly different results between makeVennDiagram and findPeakOverlaps
Genetics ChIPpeakAnno Genetics ChIPpeakAnno
updated 13.2 years ago by ★ 1.3k • written 13.2 years ago by ▴ 510
0
votes
3
replies
1.4k
views
ChIPpeakAnno
Transcription ChIPpeakAnno Transcription ChIPpeakAnno
15.9 years ago • updated 15.8 years ago Julie Zhu ★ 4.3k
4
votes
3
replies
1.8k
views
Annotation Database for ChIPpeakAnno
ChIPpeakAnno
updated 8.5 years ago by ★ 1.3k • written 8.5 years ago by ▴ 110
0
votes
3
replies
1.5k
views
strange ChIPpeakAnno and rtracklayer interaction.
GO annotate rtracklayer ChIPpeakAnno GO annotate rtracklayer ChIPpeakAnno
updated 15.2 years ago by ★ 11k • written 15.2 years ago by ▴ 20
0
votes
3
replies
3.2k
views
ChIPpeakAnno :findOverlapsOfPeaks: number for overlap peak in venn diagram is different than output of ol1$overlappingPeaks
chippeakanno
updated 8.7 years ago by ★ 1.3k • written 8.7 years ago by • 0
0
votes
3
replies
1.6k
views
RE ChIPPEAKANNO
miRNA Genetics ChIPpeakAnno miRNA Genetics ChIPpeakAnno
13.3 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
2.2k
views
ChIPpeakAnno to find peaks nearest to miRNA
miRNA GO BSgenome BSgenome ChIPpeakAnno miRNA GO BSgenome BSgenome ChIPpeakAnno
updated 13.4 years ago by ★ 4.3k • written 13.4 years ago by ▴ 350
0
votes
3
replies
1.7k
views
ChIPpeakAnno problem w getAllPeakSequence()
GO annotate ChIPpeakAnno GO annotate ChIPpeakAnno
updated 13.2 years ago by ★ 1.3k • written 13.2 years ago by ▴ 50
0
votes
3
replies
1.9k
views
integer overflow in ChIPpeakAnno assignChromosomeRegion
ChIPpeakAnno assignChromosomeRegion
updated 7.8 years ago by ★ 4.3k • written 7.8 years ago by ▴ 740
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 14.3 years ago by ▴ 810 • written 14.4 years ago by ★ 4.3k
0
votes
3
replies
1.3k
views
ChIPpeakAnno 2.12.2 bug
ChIPpeakAnno ChIPpeakAnno
updated 11.3 years ago by ★ 1.3k • written 11.3 years ago by ★ 4.3k
179 results • Page 1 of 4
Recent ...
Replies
Comment: Bioinformatician at the Lausanne University Hospital by eja.ger.m • 0
For individuals looking to improve communication and collaboration in demanding medical or research environments like the Genetic Medicine …
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Awards • All
Popular Question to Lluís Revilla Sancho ▴ 760
Popular Question to James W. MacDonald 68k
Popular Question to shepherl 4.2k
Popular Question to Gordon Smyth 53k
Commentator to sina.nassiri ▴ 130
Locations • All
United States, 1 hour ago
European Union, 2 hours ago
United States, 2 hours ago
United States, 2 hours ago
United States, 3 hours ago
Traffic: 1640 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