Showing : ChiPseeker • reset
0
votes
0
replies
352
views
ChIPseeker peak_Profile_Heatmap color palette
ChIPseeker
11 months ago Anton01 • 0
0
votes
0
replies
337
views
[ChIPseeker] Unable to perform gene ontology analysis
ChIPseeker
12 months ago Henry ▴ 10
0
votes
1
reply
615
views
plotAvgProf - How to change labels in the facet option
ChIPseeker
updated 17 months ago by 68k • written 17 months ago by • 0
0
votes
2
replies
1.3k
views
annotatePeak error for some problem
ChIPseeker
written 17 months ago by • 0
1
vote
2
replies
1.6k
views
how i can get the name of genes in pathway?
chipseq ChIPseeker
2.1 years ago chavaleab • 0
0
votes
0
replies
880
views
Can ChiPseeker be as highly customizable as "computeMatrix"? for example if I want to plot the distribution of genes on the TAD boundary?
deeptools ChIPseeker
2.1 years ago 840842906 • 0
0
votes
1
reply
1.3k
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 2.2 years ago by 68k • written 2.2 years ago by ▴ 50
0
votes
2
replies
5.9k
views
Cannot install packages in R/BiocManager_Warning message: package(s) not installed when version(s) same as or greater than current; use `force = TR…
Bioconductor BioCManager ChIPseeker
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
1
vote
0
replies
969
views
Statistical test for genomic annotation by ChIPseeker
statistics PeakAnnotation ChIPseeker GuangchuangYu
2.7 years ago arisarkar88 ▴ 40
0
votes
0
replies
1.2k
views
Problem with "TxDb.Mmusculus.UCSC.mm39.refGene" to annotate genes with ChIPseeker
TxDb.Mmusculus.UCSC.mm39.refGene ChIPseeker annotate
2.8 years ago Palmira • 0
0
votes
0
replies
3.2k
views
How to define 'distal intergenic'
ChIPseeker
2.9 years ago Sanghoon • 0
0
votes
1
reply
1.4k
views
ChIP-seq peak annotation to gene in ChIPseeker
ChIPseeker
2.9 years ago Gyan Prakash Mishra ▴ 10
0
votes
0
replies
959
views
Can we get an Average Profile of ChIP peaks binding to Transcription "START and STOP site" both in a single plot?
ChIPSeq ChIPseeker
3.0 years ago Swadha • 0
0
votes
0
replies
1.0k
views
What is weightcol doing in getTagMatrix() function of ChIPseeker?
ChIPseeker
3.1 years ago hyjforesight • 0
0
votes
1
reply
2.2k
views
ChIPseeker issue with plotpeakProf2 when making plot of peak profile across gene body and flanks
ChIPseeker
3.5 years ago william.ho • 0
0
votes
2
replies
1.4k
views
getPromoters
ChIPseeker
3.5 years ago guoyou88 • 0
0
votes
0
replies
1.0k
views
ChIPseeker, how to customize plotDistToTSS
ChIPseeker
3.6 years ago alexandre.blais ▴ 50
1
vote
3
replies
1.2k
views
what does " * " denote under the strand column of the GRanges object file output
ChIPseeker
3.8 years ago Meghna • 0
0
votes
0
replies
1.1k
views
CHIPseeker- promoter gene names
ChIPseeker CHIPsee
3.9 years ago rb • 0
0
votes
1
reply
1.9k
views
ChIPseeker: Annotating Peaks with both upstream and downstream gene
ChIPseeker
updated 4.0 years ago by ▴ 10 • written 4.0 years ago by ▴ 10
0
votes
0
replies
1.1k
views
What is the definition of flank_gene_distances output field in ChIPseeker
ChIPseeker
4.0 years ago Sam ▴ 10
0
votes
0
replies
1.4k
views
Annotation of downstream in ChIPseeker
downstream Priority ChIPseeker
4.1 years ago Xiaojie Cheng • 0
0
votes
2
replies
1.3k
views
ChIPseeker failing on r-devel on CRAN checks
ChIPseeker cinaR
4.1 years ago Onur Karakaslar • 0
1
vote
4
replies
2.9k
views
Genome annotation file in TxDb.Mmusculus.UCSC.mm10.knownGene
ChIPseeker TxDb.Mmusculus.UCSC.mm10.knownGene
4.2 years ago Kasit • 0
0
votes
0
replies
964
views
ChIPSeeker covplot function, fix yaxis
ChIPseeker
4.2 years ago jordi.planells • 0
0
votes
0
replies
962
views
Genes in ChIPseeker annotation do not exist in the organism
ChIPseeker
4.4 years ago Sam ▴ 10
2
votes
2
replies
2.9k
views
ChIP seeker annotation error
DiffBind chipseq ChIPseeker ChipDb annotation
4.4 years ago • updated 4.2 years ago Mar Mar ▴ 20
5
votes
3
replies
2.5k
views
importing BED with non-integer values
ChIPseeker ChIPSeqData
updated 4.4 years ago by 68k • written 4.4 years ago by ▴ 10
0
votes
0
replies
810
views
Regarding hiding or removing the vertical line at center (at zero coordinate) average profile in Chipseeker
ChIPseeker
4.5 years ago Prasoon • 0
0
votes
1
reply
2.1k
views
How to use peak summits instead of TSS or transcript to plot heatmap for other factors
ChIPseqR ChIPs ChIPseeker ChIPSeq chipseq
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
0
votes
0
replies
1.2k
views
About metadata columns in Grange objects required for ChIPseeker analysis
ChIPseeker
4.5 years ago ahua217 ▴ 10
0
votes
0
replies
979
views
How to get the raw numbers of annotated features by ChIPseeker?
ChIPseeker
4.5 years ago bioinfouser2 ▴ 10
2
votes
1
reply
2.5k
views
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
ChiPseeker plotAnnoPie
4.6 years ago amafon95 ▴ 20
0
votes
1
reply
1.2k
views
p value after enrichPeakOverlap analysis in ChIPseeker
ChIPseeker
updated 20 months ago by • 0 • written 4.7 years ago by • 0
0
votes
0
replies
1.2k
views
ChIPseeker error when I wnat to get tagMatrix
Chipseeker TxDb getpromoters software error
4.9 years ago hfyuan2016 • 0
0
votes
0
replies
1.0k
views
Potential oversimplification in the overlap function
ChIPseeker
4.9 years ago konsta.kukkonen • 0
1
vote
0
replies
1.1k
views
Functional enrichment analysis issue/ChIPseeker package
ChIPseeker
5.0 years ago egbastakis • 0
0
votes
1
reply
2.0k
views
ChIPSeeker with Ensembl IDs
chipseeker Ensembl EnsDb.Mmusculus.v79 ensembldb
5.0 years ago Assa Yeroslaviz ★ 1.5k
0
votes
1
reply
1.2k
views
ChIPSeeker - options(ChIPseeker.downstreamDistance = 500) seems not work
ChIPseeker
5.2 years ago Guandong Shang ▴ 40
0
votes
1
reply
2.0k
views
Using EnsDb.Hsapiens.v86 database doesn't fetch the ENSEMBL IDs
ChIPseeker
5.6 years ago sutturka • 0
1
vote
2
replies
4.2k
views
Unable to annotate the differential peaks from DiffBind using ChIPseeker
chip seq ChIPseeker peak annotation annotatePeak() Diffbind
5.6 years ago researcher • 0
2
votes
1
reply
4.6k
views
Finding the proper universe for enrichGO and enrichKEGG - only the genes that are annotated in those ontologies
chipseeker ChIPseeker
5.7 years ago endrebak85 ▴ 40
1
vote
3
replies
1.5k
views
Error: package or namespace load failed for 'ChIPseeker': 'TxDb.Hsapiens.UCSC.hg19.knownGene' is not exported from 'namespace: TxDb.Hsapiens.UCSC.hg1…
chipseq chipseeker R Bioconductor
updated 5.8 years ago by 25k • written 5.8 years ago by ▴ 10
0
votes
1
reply
3.3k
views
error in readPeakFile {chipseeker}
ChIPseeker readPeakFile
5.9 years ago Theo ▴ 10
0
votes
1
reply
1.4k
views
Problem in using covplot ChIPseeker
ChIPseeker software error
6.1 years ago vasudha.sharma • 0
3
votes
2
replies
2.2k
views
How to use EnsDb in annotatePeak from package "ChIPseeker"
GRanges ChIPseeker annotatePeak TxDb EnsDb
updated 6.2 years ago by ★ 2.1k • written 6.2 years ago by ▴ 100
1
vote
1
reply
2.1k
views
ChIPseeker genomicAnnotationPriority
annotation chipseeker
updated 3.7 years ago by • 0 • written 6.3 years ago by ▴ 10
0
votes
0
replies
1.4k
views
How to use ChIPseeker for getting genebody annotations.
chipseeker chipseq
6.3 years ago bioinfouser2 ▴ 10
0
votes
2
replies
1.5k
views
how to get frequencies from plotDistToTSS
chipseeker
6.4 years ago KKO • 0
1
vote
0
replies
1.3k
views
ChipSeeker Flanking gene annotation
chipseeker
6.6 years ago Lauma R ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: DeSeq Strategies for run to run Replication by Michael Love 43k
You shouldn't need to run `DESeq` on the test data, or manually compute normalization factors. ``` dds_test <- ... # create object dds_te…
Answer: Feature Counts - potential bug with outfile.jcounts by Wei Shi ★ 3.6k
We have made significant changes to how featureCounts annotates junctions detected in read mapping results. These updates are included in t…
Comment: How to perform batch correction on scRNA-seq with confounding plate effects? by 瑞宏 • 0
I would like to share my own understanding: in single-cell RNA sequencing (scRNA-seq), batch correction is solely intended to identify the …
Comment: DiffBind can't find a DAR by Mengjun • 0
Additionally, i checked my bigwig in igv, it shows that the ctrl_1 is more like ko_1, and ctrl_2's track is more like ko_2's track. Did an…
Comment: European Bioconductor Conference 2023 planning by ht • 0
Great news about the European Bioconductor Conference 2023 planning! As someone who enjoys statistical computing and bioinformatics, I'm ex…
Votes
C: Annotating HTA 2.0 genes
C: Annotating HTA 2.0 genes
A: Annotating HTA 2.0 genes
A: Annotating HTA 2.0 genes
Answer: Feature Counts - potential bug with outfile.jcounts
Awards • All
Popular Question to Mengjun • 0
Popular Question to James W. MacDonald 68k
Popular Question to shepherl 4.1k
Popular Question to Dario Strbenac ★ 1.6k
Popular Question to matthew • 0
Locations • All
Switzerland, 24 minutes ago
United States, 28 minutes ago
Pittsburgh, United States, 58 minutes ago
United States, 2 hours ago
UPF, Barcelona, Spain, 2 hours ago
Traffic: 518 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