Showing : ChiPpeakAnno • reset
0
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3
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596
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ChIPpeakAnno can not load data
genomes ChIPpeakAnno
written 7 months ago by • 0
0
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0
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700
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FindOverlaps, makeVennDiagram and "others"
ATACSeq peaks ATAC ChIPpeakAnno
11 months ago Raghad • 0
0
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0
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623
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Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
14 months ago nilanjanamani88 • 0
1
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5
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1.3k
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ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
18 months ago ilaria.maurizio • 0
0
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0
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579
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Why there are two pfms in the result of oligoSummary function of ChIPpeakAnno package?
ChIPpeakAnno ChIPSeq MotifDiscovery
19 months ago franciscrick41 • 0
3
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7
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1.5k
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Genes in open chromatin region
ChIPpeakAnno DiffBind
written 19 months ago by ▴ 20
2
votes
14
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2.0k
views
ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno ChIPSeq
updated 20 months ago by 68k • written 20 months ago by ▴ 10
0
votes
1
reply
820
views
genomeStyles error in ChIPpeakAnno
Chippeakanno ChIPpeakAnno
updated 21 months ago by 68k • written 21 months ago by • 0
0
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2
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1.1k
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annotate peaks using a custom genome
ChIPSeq annotate ChIPpeakAnno
updated 24 months ago by ▴ 70 • written 2.0 years ago by ▴ 140
9
votes
16
replies
2.6k
views
How to apply ChIPpeakAnno to your Granger object to annotate the peaks?
ChIPpeakAnno
2.0 years ago Chris ▴ 20
1
vote
2
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966
views
How to map geneIds to ENTREZIDs
Xenopus_laevis ChIPpeakAnno
2.2 years ago stacy.genovese • 0
1
vote
1
reply
862
views
Interpretation of $vennCounts output "Others"
ChIPpeakAnno
updated 2.3 years ago by ★ 1.3k • written 2.3 years ago by ▴ 10
0
votes
2
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1000
views
Empty matrix
ChIPpeakAnno Normalization EnrichedHeatmap HELP TxDb.Celegans.UCSC.ce11.refGene
2.5 years ago michela ▴ 20
0
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1
reply
862
views
Trying to understand the `select` option in `annotatePeakInBatch` function of `ChIPpeakAnno` package.
ChIPpeakAnno
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
1
vote
1
reply
940
views
How can I do pathway analysis by ChipPeakAnno package?
ChIPpeakAnno
2.7 years ago mehdi • 0
0
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1
reply
948
views
AssignChromosomeRegion not working in Rstudio 4.2
ChIPpeakAnno ChIPSeq
updated 2.9 years ago by ★ 1.3k • written 2.9 years ago by • 0
0
votes
1
reply
1.2k
views
peak annotation
ChIPpeakAnno Annotation
updated 3.0 years ago by ▴ 70 • written 3.1 years ago by ▴ 670
1
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2
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2.2k
views
another problem when converting bed to granges using togranges
ChIPpeakAnno
3.2 years ago Bakhtiyar • 0
0
votes
2
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1.3k
views
ChIP-seq or CUT&RUN enrichment
ChIPQC ChIPpeakAnno
3.2 years ago Bogdan ▴ 670
2
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6
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3.3k
views
Problem converting a bed file to granges using togranges chippeakanno
ChIPpeakAnno
updated 3.2 years ago by ▴ 70 • written 3.2 years ago by • 0
0
votes
0
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1.0k
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findOverlapsOfPeaks - peaklist of connectedPeaks="min:
findOverlapsOfPeaks ChIPpeakAnno chipseq
3.4 years ago Nadav • 0
1
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2
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3.2k
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ChIPpeakAnno findOverlapsOfPeaks error: "Error in FUN(X[[i]], ...) : Inputs contains duplicated ranges. please recheck your inputs."
HELP ChIPpeakAnno
3.4 years ago lexi.kellington • 0
0
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4
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2.6k
views
Error in .order_seqlevels(chrom_sizes[, "chrom"])
ChIPpeakAnno
3.5 years ago Tongjun • 0
1
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6
replies
2.1k
views
Annotation by CHIPeakAnno tool
ChIPpeakAnno
3.8 years ago Arunima ▴ 10
1
vote
3
replies
1.2k
views
genomicElementDistribution function not found
ChIPpeakAnno
updated 3.8 years ago by ★ 4.3k • written 3.8 years ago by ▴ 10
2
votes
2
replies
1.7k
views
Hello how to use ChIPpeakAnno for latest version of ensemble genome aligned data
ChIPpeakAnno
4.1 years ago Lucky • 0
7
votes
9
replies
2.7k
views
counts of overlapping peaks using findOverlapOfPeaks from ChIPpeakAnno
chippeakanno
updated 4.6 years ago by ★ 4.3k • written 4.7 years ago by ▴ 140
2
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2
replies
1.1k
views
how to suppress makeVennDiagram plot
ChIPpeakAnno
4.7 years ago C T ▴ 140
1
vote
2
replies
1.2k
views
How to get 'shortest' distance with ChIPpeakAnno::binOverFeature
ChIPpeakAnno
5.7 years ago liruiradiant • 0
0
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1
reply
1.4k
views
Unable to annotate in ChIPQC using yeast genome
ChIPQC GenomicRanges ChIPpeakAnno
updated 4.0 years ago by • 0 • written 5.9 years ago by • 0
0
votes
4
replies
1.7k
views
chippeakanno file reading error
ChiPpeakAnno
6.1 years ago saddamhusain77 • 0
1
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6
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1.8k
views
how does "maxgap" in ChIPpeakAnno working?
ChIPpeakAnno
6.2 years ago ngs06 ▴ 20
2
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10
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4.0k
views
ChIPpeakAnno, MACS format annotation
bioconductor ChIPpeakAnno
updated 6.3 years ago by ★ 4.3k • written 8.1 years ago by ▴ 30
0
votes
7
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2.0k
views
ChIPpeakAnno overlap peaks with TSS returns more than TSS overlap
chippeakanno chipseq R
updated 6.6 years ago by ★ 1.3k • written 6.6 years ago by • 0
3
votes
6
replies
2.0k
views
ChIP peak annotation: how to get all genes that overlap each peak?
ChIP-seq chippeakanno chipseeker
6.8 years ago 94133 • 0
0
votes
1
reply
1.4k
views
Error creating pool for permutation test (PeakPermTest)
permutation pool chippeakanno
6.8 years ago ge2sasag • 0
1
vote
1
reply
1.2k
views
Row clustering featureAlignedHeatmap function (ChipPeakAnno package)
heatmap chippeakanno
updated 7.0 years ago by ★ 1.3k • written 7.0 years ago by • 0
2
votes
2
replies
2.0k
views
Can't install ChIPpeakanno - "libmysqlclient was not found" - do I need to remove latest version of R?
ChIPpeakAnno
updated 7.2 years ago by ★ 6.6k • written 7.2 years ago by ▴ 70
0
votes
3
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1.7k
views
integer overflow in ChIPpeakAnno assignChromosomeRegion
ChIPpeakAnno assignChromosomeRegion
updated 7.2 years ago by ★ 4.3k • written 7.2 years ago by ▴ 740
1
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1
reply
1.2k
views
Custom regions in assignChromosomeRegion?
chippeakanno
updated 7.2 years ago by ★ 1.3k • written 7.2 years ago by • 0
1
vote
2
replies
2.8k
views
Error : object path is not exported by namespace:Rsamtools
packages installation problem rsamtools chippeakanno ensembldb
7.4 years ago inzirio ▴ 10
1
vote
4
replies
1.8k
views
ChIPpeakAnno binOverGene error
chippeakanno binOverGene
updated 7.4 years ago by ★ 1.3k • written 7.4 years ago by • 0
0
votes
1
reply
1.4k
views
ChIPpeakAnno to find peaks nearest to miRNA
ChIPpeakAnno ChIPpeakAnno
updated 7.5 years ago by • 0 • written 12.4 years ago by ▴ 120
2
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3
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3.1k
views
org.Mm.eg.db mm9 version for ChIPpeakAnno getEnrichedGO function
chippeakanno annotationdbi
updated 7.5 years ago by • 0 • written 9.5 years ago by • 0
0
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1
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1.6k
views
featureAlignedSignal() error: deparse(sig): object 'sig' not found.
bioconductor chippeakanno featureAlignedDistribution featureAlignedSignal
updated 7.5 years ago by • 0 • written 8.6 years ago by • 0
0
votes
1
reply
1.2k
views
Help for ChIP script !! Error message while installing packages
annotation chippeakanno
updated 7.6 years ago by 25k • written 7.6 years ago by • 0
5
votes
4
replies
5.6k
views
What are out-of-bound ranges? Is it necessary to get rid of them?
r ChIPpeakAnno
8.0 years ago • updated 7.8 years ago salamandra ▴ 20
4
votes
3
replies
1.6k
views
Annotation Database for ChIPpeakAnno
ChIPpeakAnno
updated 7.8 years ago by ★ 1.3k • written 7.8 years ago by ▴ 110
1
vote
1
reply
1.4k
views
Regarding ChIPpeakAnno installation error
chippeakanno
updated 8.0 years ago by 25k • written 8.0 years ago by ▴ 10
0
votes
3
replies
3.0k
views
ChIPpeakAnno :findOverlapsOfPeaks: number for overlap peak in venn diagram is different than output of ol1$overlappingPeaks
chippeakanno
updated 8.1 years ago by ★ 1.3k • written 8.1 years ago by • 0
50 results • Page 1 of 1
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Comment: Differing results with DESeq2 by JKim • 0
My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…
Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k
This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…
Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80
Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…
Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0
That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…
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