Showing : chippeakanno • reset
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Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
3 months ago nilanjanamani88 • 0
1
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5
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574
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ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
6 months ago ilaria.maurizio • 0
0
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0
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288
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Why there are two pfms in the result of oligoSummary function of ChIPpeakAnno package?
ChIPpeakAnno ChIPSeq MotifDiscovery
7 months ago franciscrick41 • 0
3
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7
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868
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Genes in open chromatin region
ChIPpeakAnno DiffBind
written 7 months ago by • 0
2
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14
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1.1k
views
ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno ChIPSeq
updated 8 months ago by 65k • written 8 months ago by ▴ 10
0
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1
reply
486
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genomeStyles error in ChIPpeakAnno
Chippeakanno ChIPpeakAnno
updated 9 months ago by 65k • written 9 months ago by • 0
0
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2
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614
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annotate peaks using a custom genome
ChIPSeq annotate ChIPpeakAnno
updated 12 months ago by ▴ 70 • written 12 months ago by ▴ 140
9
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16
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1.7k
views
How to apply ChIPpeakAnno to your Granger object to annotate the peaks?
ChIPpeakAnno
13 months ago • updated 12 months ago Chris • 0
1
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2
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637
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How to map geneIds to ENTREZIDs
Xenopus_laevis ChIPpeakAnno
15 months ago stacy.genovese • 0
1
vote
1
reply
610
views
Interpretation of $vennCounts output "Others"
ChIPpeakAnno
updated 16 months ago by ★ 1.3k • written 16 months ago by ▴ 10
0
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2
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725
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Empty matrix
ChIPpeakAnno Normalization EnrichedHeatmap HELP TxDb.Celegans.UCSC.ce11.refGene
18 months ago michela ▴ 20
0
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1
reply
592
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Trying to understand the `select` option in `annotatePeakInBatch` function of `ChIPpeakAnno` package.
ChIPpeakAnno
updated 20 months ago by 65k • written 20 months ago by • 0
1
vote
1
reply
637
views
How can I do pathway analysis by ChipPeakAnno package?
ChIPpeakAnno
21 months ago mehdi • 0
0
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1
reply
715
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AssignChromosomeRegion not working in Rstudio 4.2
ChIPpeakAnno ChIPSeq
updated 24 months ago by ★ 1.3k • written 24 months ago by • 0
0
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1
reply
802
views
peak annotation
ChIPpeakAnno Annotation
updated 2.1 years ago by ▴ 70 • written 2.2 years ago by ▴ 670
1
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2
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1.7k
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another problem when converting bed to granges using togranges
ChIPpeakAnno
2.2 years ago Bakhtiyar • 0
0
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2
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907
views
ChIP-seq or CUT&RUN enrichment
ChIPQC ChIPpeakAnno
2.2 years ago Bogdan ▴ 670
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
0
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0
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745
views
findOverlapsOfPeaks - peaklist of connectedPeaks="min:
findOverlapsOfPeaks ChIPpeakAnno chipseq
2.4 years ago Nadav • 0
1
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2
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2.4k
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ChIPpeakAnno findOverlapsOfPeaks error: "Error in FUN(X[[i]], ...) : Inputs contains duplicated ranges. please recheck your inputs."
HELP ChIPpeakAnno
2.5 years ago lexi.kellington • 0
0
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4
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2.1k
views
Error in .order_seqlevels(chrom_sizes[, "chrom"])
ChIPpeakAnno
2.5 years ago Tongjun • 0
1
vote
6
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1.5k
views
Annotation by CHIPeakAnno tool
ChIPpeakAnno
2.9 years ago Arunima ▴ 10
1
vote
3
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917
views
genomicElementDistribution function not found
ChIPpeakAnno
updated 2.9 years ago by ★ 4.3k • written 2.9 years ago by ▴ 10
2
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2
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1.3k
views
Hello how to use ChIPpeakAnno for latest version of ensemble genome aligned data
ChIPpeakAnno
3.2 years ago Lucky • 0
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
2
votes
2
replies
808
views
how to suppress makeVennDiagram plot
ChIPpeakAnno
3.8 years ago C T ▴ 140
1
vote
2
replies
965
views
How to get 'shortest' distance with ChIPpeakAnno::binOverFeature
ChIPpeakAnno
4.8 years ago liruiradiant • 0
0
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1
reply
1.1k
views
Unable to annotate in ChIPQC using yeast genome
ChIPQC GenomicRanges ChIPpeakAnno
updated 3.0 years ago by • 0 • written 5.0 years ago by • 0
0
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4
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1.2k
views
chippeakanno file reading error
ChiPpeakAnno
5.1 years ago saddamhusain77 • 0
1
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6
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1.4k
views
how does "maxgap" in ChIPpeakAnno working?
ChIPpeakAnno
5.2 years ago ngs06 ▴ 20
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
0
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7
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1.5k
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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
3
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6
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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
0
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1
reply
1.2k
views
Error creating pool for permutation test (PeakPermTest)
permutation pool chippeakanno
5.8 years ago ge2sasag • 0
1
vote
1
reply
964
views
Row clustering featureAlignedHeatmap function (ChipPeakAnno package)
heatmap chippeakanno
updated 6.0 years ago by ★ 1.3k • written 6.0 years ago by • 0
2
votes
2
replies
1.6k
views
Can't install ChIPpeakanno - "libmysqlclient was not found" - do I need to remove latest version of R?
ChIPpeakAnno
updated 6.2 years ago by ★ 6.5k • written 6.2 years ago by ▴ 30
0
votes
3
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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
1
vote
1
reply
940
views
Custom regions in assignChromosomeRegion?
chippeakanno
updated 6.3 years ago by ★ 1.3k • written 6.3 years ago by • 0
1
vote
2
replies
2.4k
views
Error : object path is not exported by namespace:Rsamtools
packages installation problem rsamtools chippeakanno ensembldb
6.4 years ago inzirio ▴ 10
1
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4
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1.5k
views
ChIPpeakAnno binOverGene error
chippeakanno binOverGene
updated 6.4 years ago by ★ 1.3k • written 6.5 years ago by • 0
0
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1
reply
1.2k
views
ChIPpeakAnno to find peaks nearest to miRNA
ChIPpeakAnno ChIPpeakAnno
updated 6.5 years ago by • 0 • written 11.4 years ago by ▴ 120
2
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3
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2.7k
views
org.Mm.eg.db mm9 version for ChIPpeakAnno getEnrichedGO function
chippeakanno annotationdbi
updated 6.5 years ago by • 0 • written 8.5 years ago by • 0
0
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1
reply
1.4k
views
featureAlignedSignal() error: deparse(sig): object 'sig' not found.
bioconductor chippeakanno featureAlignedDistribution featureAlignedSignal
updated 6.5 years ago by • 0 • written 7.6 years ago by • 0
0
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1
reply
957
views
Help for ChIP script !! Error message while installing packages
annotation chippeakanno
updated 6.6 years ago by 25k • written 6.6 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
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
1
vote
1
reply
1.1k
views
Regarding ChIPpeakAnno installation error
chippeakanno
updated 7.0 years ago by 25k • written 7.0 years ago by ▴ 10
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
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
2
votes
3
replies
1.6k
views
ChIPpeakAnno-annotation of peaklist with gene names, creating heat maps
chippeakanno overlappingpeaks annotation
updated 7.4 years ago by ★ 1.3k • written 7.4 years ago by • 0
50 results • Page 1 of 1
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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.
Comment: Extremely small p-values using Limma for proteomic data by Robert Castelo ★ 3.3k
From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
Comment: deseq2 results by ATpoint ★ 4.1k
> the results are not satisfactory to me Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…
Comment: Extremely small p-values using Limma for proteomic data by ATpoint ★ 4.1k
It's not an implementation problem I am discussing (it's trivial obviously) -- more that for most purposes the y-axis metric should be the …
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
Answer: Cannot connect to ExperimentHub server
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