Showing : chippeakanno • reset
9
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16
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1.7k
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How to apply ChIPpeakAnno to your Granger object to annotate the peaks?
ChIPpeakAnno
13 months ago • updated 12 months ago Chris • 0
5
votes
15
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3.3k
views
nearest genes using TxDb.Hsapiens.UCSC.hg19
txdb.hsapiens.ucsc.hg19.knowngene ChIPpeakAnno
updated 7.9 years ago by ★ 4.3k • written 7.9 years ago by ▴ 140
2
votes
14
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1.1k
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ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno ChIPSeq
updated 8 months ago by 65k • written 8 months ago by ▴ 10
4
votes
12
replies
2.6k
views
Curious behaviour of ChIPpeakAnno
chippeakanno
updated 9.5 years ago by ★ 1.3k • written 9.5 years ago by ▴ 20
0
votes
12
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2.4k
views
more stupid *Ranges questions...
Transcription ChIPpeakAnno GenomicRanges Transcription ChIPpeakAnno GenomicRanges
updated 12.7 years ago by ★ 11k • written 12.7 years ago by ★ 4.2k
2
votes
10
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3.3k
views
ChIPpeakAnno, MACS format annotation
bioconductor ChIPpeakAnno
updated 5.3 years ago by ★ 4.3k • written 7.1 years ago by ▴ 30
22
votes
10
replies
7.4k
views
Error in GRanges: could not find symbol "recursive" in environment of the generic function
granges chippeakanno
updated 7.2 years ago by ▴ 10 • written 7.2 years ago by ▴ 80
1
vote
9
replies
3.7k
views
ChIPpeakAnno: findOverlapsOfPeaks keep GRanges metadata
chippeakanno findOverlapsOfPeaks
updated 9.0 years ago by ▴ 240 • written 9.0 years ago by ▴ 30
7
votes
9
replies
1.9k
views
counts of overlapping peaks using findOverlapOfPeaks from ChIPpeakAnno
chippeakanno
updated 3.7 years ago by ★ 4.3k • written 3.7 years ago by ▴ 140
0
votes
8
replies
1.6k
views
ChIPpeakAnno Strandedness and distance calculation
Annotation Cancer ChIPpeakAnno Annotation Cancer ChIPpeakAnno
updated 14.0 years ago by ★ 1.5k • written 14.0 years ago by ★ 4.3k
0
votes
7
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1.9k
views
ChIPpeakAnno::getEnrichedGo crashes but I don't know why
annotate ChIPpeakAnno annotate ChIPpeakAnno
updated 13.3 years ago by ★ 4.3k • written 13.4 years ago by ▴ 40
3
votes
7
replies
869
views
Genes in open chromatin region
ChIPpeakAnno DiffBind
written 7 months ago by • 0
2
votes
7
replies
2.9k
views
ChIPpeakAnno-problem exporting data due to "arguments imply differing number of rows"
chippeakanno
updated 7.4 years ago by ★ 4.3k • written 7.4 years ago by • 0
0
votes
7
replies
1.5k
views
[Bioc-sig-seq] ChIPpeakAnno annotatePeakInBatch function
Annotation GO BSgenome BSgenome ChIPpeakAnno Annotation GO BSgenome BSgenome ChIPpeakAnno
updated 14.2 years ago by ▴ 310 • written 14.2 years ago by ★ 4.3k
0
votes
7
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1.5k
views
ChIPpeakAnno overlap peaks with TSS returns more than TSS overlap
chippeakanno chipseq R
updated 5.6 years ago by ★ 1.3k • written 5.6 years ago by • 0
0
votes
7
replies
1.4k
views
Problem loading BED file with BED2RangedData
GO ChIPpeakAnno GO ChIPpeakAnno
updated 11.4 years ago by ★ 1.3k • written 11.4 years ago by ▴ 280
2
votes
6
replies
2.2k
views
Problem converting a bed file to granges using togranges chippeakanno
ChIPpeakAnno
updated 2.3 years ago by ▴ 70 • written 2.3 years ago by • 0
3
votes
6
replies
1.6k
views
ChIP peak annotation: how to get all genes that overlap each peak?
ChIP-seq chippeakanno chipseeker
5.8 years ago 94133 • 0
1
vote
6
replies
1.6k
views
Annotation by CHIPeakAnno tool
ChIPpeakAnno
2.9 years ago Arunima ▴ 10
0
votes
6
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1.6k
views
Question RE: getEnrichedGo in ChIPpeakAnno package
Yeast ChIPpeakAnno Starr Yeast ChIPpeakAnno Starr
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ▴ 410
1
vote
6
replies
1.4k
views
how does "maxgap" in ChIPpeakAnno working?
ChIPpeakAnno
5.2 years ago ngs06 ▴ 20
0
votes
5
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1.2k
views
Get ChIPpeakAnno to report total number of covered bases in VennDiagrams instead of (or in addition to) regions
chippeakanno
updated 9.3 years ago by ★ 1.3k • written 9.3 years ago by ▴ 20
3
votes
5
replies
3.5k
views
Error with ChIPpeakAnno Ensembl annotation
ChIPpeakAnno genomicfeatures
updated 7.5 years ago by ★ 4.3k • written 7.5 years ago by ▴ 360
0
votes
5
replies
1.1k
views
ChIPpeakAnno question--peak aggregation over bins from TSS
ChIPpeakAnno ChIPpeakAnno
updated 11.3 years ago by ★ 4.3k • written 11.3 years ago by ▴ 40
0
votes
5
replies
1.4k
views
Query on ChipPeakAnno: AnnotatePeakinBatch input
Annotation Cancer ChIPpeakAnno Annotation Cancer ChIPpeakAnno
updated 10.4 years ago by ▴ 30 • written 10.4 years ago by ★ 4.3k
4
votes
5
replies
1.7k
views
ChIPpeakAnno getAnnotation request fail
chippeakanno biomart ensembl
8.3 years ago igor ▴ 40
1
vote
5
replies
575
views
ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
6 months ago ilaria.maurizio • 0
0
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5
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1.5k
views
[ChIPpeakAnno] Can not start ChIPpeakAnno after update to version 2.5.9
ChIPpeakAnno ChIPpeakAnno
updated 11.9 years ago by ★ 13k • written 11.9 years ago by ▴ 90
0
votes
4
replies
1.2k
views
ChIPpeakAnno
convert ChIPpeakAnno convert ChIPpeakAnno
11.7 years ago Julie Zhu ★ 4.3k
1
vote
4
replies
1.5k
views
ChIPpeakAnno binOverGene error
chippeakanno binOverGene
updated 6.4 years ago by ★ 1.3k • written 6.5 years ago by • 0
5
votes
4
replies
4.7k
views
What are out-of-bound ranges? Is it necessary to get rid of them?
r ChIPpeakAnno
7.1 years ago • updated 6.8 years ago salamandra ▴ 20
0
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4
replies
1.3k
views
more question about makeVennDiagram
GO ChIPpeakAnno GO ChIPpeakAnno
11.8 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
1.3k
views
about ChIPpeakAnno
Annotation ChIPpeakAnno Annotation ChIPpeakAnno
13.7 years ago • updated 13.6 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
1.3k
views
question regarding ChIPPeakAnno use
ChIPpeakAnno ChIPpeakAnno
updated 12.1 years ago by ▴ 20 • written 12.2 years ago by ★ 4.3k
0
votes
4
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1.2k
views
Suggestion for a small change to ChIPpeakAnno
ChIPpeakAnno ChIPpeakAnno
9.9 years ago • updated 9.8 years ago 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 ★ 4.3k • written 12.2 years ago by ▴ 910
0
votes
4
replies
2.1k
views
Error in .order_seqlevels(chrom_sizes[, "chrom"])
ChIPpeakAnno
2.5 years ago Tongjun • 0
0
votes
4
replies
1.2k
views
chippeakanno file reading error
ChiPpeakAnno
5.1 years ago saddamhusain77 • 0
2
votes
4
replies
1.7k
views
ChIPpeakAnno annotatePeakInBatch output
chippeakanno
8.3 years ago igor ▴ 40
0
votes
3
replies
1.1k
views
ChipPeakAnno - slightly different results between makeVennDiagram and findPeakOverlaps
Genetics ChIPpeakAnno Genetics ChIPpeakAnno
updated 11.6 years ago by ★ 1.3k • written 11.6 years ago by ▴ 510
0
votes
3
replies
1.1k
views
ChIPpeakAnno
Transcription ChIPpeakAnno Transcription ChIPpeakAnno
14.3 years ago • updated 14.2 years ago Julie Zhu ★ 4.3k
4
votes
3
replies
1.3k
views
Annotation Database for ChIPpeakAnno
ChIPpeakAnno
updated 6.9 years ago by ★ 1.3k • written 6.9 years ago by ▴ 110
0
votes
3
replies
1.2k
views
strange ChIPpeakAnno and rtracklayer interaction.
GO annotate rtracklayer ChIPpeakAnno GO annotate rtracklayer ChIPpeakAnno
updated 13.6 years ago by ★ 11k • written 13.6 years ago by ▴ 20
0
votes
3
replies
2.5k
views
ChIPpeakAnno :findOverlapsOfPeaks: number for overlap peak in venn diagram is different than output of ol1$overlappingPeaks
chippeakanno
updated 7.1 years ago by ★ 1.3k • written 7.1 years ago by • 0
0
votes
3
replies
1.2k
views
RE ChIPPEAKANNO
miRNA Genetics ChIPpeakAnno miRNA Genetics ChIPpeakAnno
11.7 years ago Julie Zhu ★ 4.3k
0
votes
3
replies
1.7k
views
ChIPpeakAnno to find peaks nearest to miRNA
miRNA GO BSgenome BSgenome ChIPpeakAnno miRNA GO BSgenome BSgenome ChIPpeakAnno
updated 11.8 years ago by ★ 4.3k • written 11.8 years ago by ▴ 350
0
votes
3
replies
1.4k
views
ChIPpeakAnno problem w getAllPeakSequence()
GO annotate ChIPpeakAnno GO annotate ChIPpeakAnno
updated 11.6 years ago by ★ 1.3k • written 11.6 years ago by ▴ 50
0
votes
3
replies
1.4k
views
integer overflow in ChIPpeakAnno assignChromosomeRegion
ChIPpeakAnno assignChromosomeRegion
updated 6.2 years ago by ★ 4.3k • written 6.2 years ago by ▴ 740
0
votes
3
replies
1.2k
views
chippeakanno:::addGeneID for adding gene symbol etc. to annotatedPeak or enrichedGO
Annotation convert biomaRt bridge ChIPpeakAnno Annotation convert biomaRt bridge
updated 12.7 years ago by ▴ 810 • written 12.8 years ago by ★ 4.3k
0
votes
3
replies
969
views
ChIPpeakAnno 2.12.2 bug
ChIPpeakAnno ChIPpeakAnno
updated 9.7 years ago by ★ 1.3k • written 9.7 years ago by ★ 4.3k
50 results • Page 1 of 1
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Hi Pekka, I also try EGSEA with microarray data. However, I got this error. Would you please have a suggestion? gsa = egsea.ma(numeric…
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> Any suggestions for methylation data segmentation? I think the same segmentation can be used.
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Cross-posted https://www.biostars.org/p/9594331/#9594458
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Mike Smith ★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
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Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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