YuLab-SMU ChIPseeker issues

YuLab-SMU / ChIPseeker

:dart: ChIP peak Annotation, Comparison and Visualization

https://onlinelibrary.wiley.com/share/author/GYJGUBYCTRMYJFN2JFZZ?target=10.1002/cpz1.585

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issues

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fix issue #94

#146 MingLi-929 closed 3 years ago
0
RAM usage question for getTagMatrix and plotAvgProf using GFF txdb

#145 MrKevinDC closed 2 years ago
1
bug fixed issue#134 and add function

#144 MingLi-929 closed 3 years ago
0
covplot for GRangesList not working as intended

#143 MrKevinDC closed 3 years ago
1
annotatePeak issue with genomicAnnotationPriority order

#142 Liufan-YIN closed 3 years ago
2
Update utilities.R to fix a bug

#141 MingLi-929 closed 3 years ago
0
TagHeatmap Color

#140 mangchen922 opened 3 years ago
0
options(ChIPseeker.downstreamDistance = 500) seems not work

#139 shangguandong1996 opened 3 years ago
1
Gene names in ChIPseeker annotation do not reflect the genes of the organism

#138 sam-israel opened 3 years ago
0
issue using TxDb.Hsapiens.UCSC.hg38.knownGene for peak annotation

#137 MryamRidha closed 2 years ago
2
Average profile around user supplied branch point region

#136 prasoonnema opened 3 years ago
0
The tagHeatmap cannot be drawn

#135 BeyondMyPast228 opened 4 years ago
0
plotAnnoPie from ChIPseeker gives incomplete legends

#134 ahua217 closed 3 years ago
2
covplot from ChIPSeeker gives distribution of abundant chromosomes.

#133 ahua217 closed 3 years ago
3
Newest version for BiocManager

#132 flde closed 4 years ago
0
ChIPseeker cannot work for unpublished GFF3 file？

#131 hfyuanuq closed 4 years ago
1
p value after enrichPeakOverlap analysis

#130 matwgmkw opened 4 years ago
1
Problem with "plotAvgProf"- Can I change other annotation of zero point instead of "TSS" ?

#129 sjw126163 opened 4 years ago
1
Problem with annotation

#128 dktanwar opened 4 years ago
0
getPromoters with 0 ranges

#127 hfyuanuq closed 4 years ago
1
change of linetype for plotAvgProf

#126 prasoonnema opened 4 years ago
0
annotatePeak : 'select()' returned 1:many mapping between keys and columns

#125 sunta3iouxos opened 4 years ago
1
对于注释结果的疑问

#124 axin527 closed 2 years ago
1
The number of genes assigned to the peaks in bed file does not change with varying tssRegion

#123 vyturing opened 4 years ago
0
Strand information

#122 eregenyi opened 4 years ago
0
Error Marker Downstream(<=300) in annotatePeak()

#121 taotao0501 opened 4 years ago
0
Add support for ensembldb EnsDb databases to annotatePeak

#120 jorainer closed 3 years ago
1
enrichPathway using Ensembl IDs

#119 yeroslaviz opened 4 years ago
0
warning message: Unknown ID type, gene annotation will not be added

#118 yue131 opened 4 years ago
2
How to analyse TDF format files using ChIPseeker?

#117 a457908318 opened 4 years ago
0
AnnotatePeak error

#116 Hdang1234 opened 4 years ago
0
fix bugs

#115 huerqiang closed 4 years ago
0
used custom Annodb library for enrichPathway() function

#114 El-Castor opened 4 years ago
0
Can result of annotatePeak can also ouput the "annotation" column assigned "gene"

#113 shangguandong1996 opened 4 years ago
0
options(ChIPseeker.downstreamDistance = 500) seems not work

#112 shangguandong1996 closed 3 years ago
1
ChIPseeker输出注释文件染色体对不上号

#111 xiangrong7 opened 4 years ago
1
Expose option for multicore CPUs

#110 msmallegan closed 3 years ago
1
Question about multiple annotation in ChIPseeker

#109 cyruinous opened 4 years ago
1
some questions in ChiPseeker

#108 xp876 opened 4 years ago
3
Set xlim using facet_grid covplot GRanges list

#107 jasonsaunderswilliams opened 4 years ago
0
cvplot

#106 yx-xu opened 5 years ago
0
Number of peaks is wrong

#105 haowenz closed 5 years ago
7
cannot get tagMatrix

#104 lumin2003 opened 5 years ago
1
Add a contributor in DESCRIPTION

#103 xuzhougeng closed 5 years ago
0
Error in gridPLT() : Figure region too small and/or viewport too large

#102 PromoterBio-zhaojp closed 5 years ago
1
Add subset function for csAnno

#101 xuzhougeng closed 5 years ago
0
Error: package or namespace load failed for 'ChIPseeker': 'TxDb.Hsapiens.UCSC.hg19.knownGene' is not exported from 'namespace: TxDb.Hsapiens.UCSC.hg19.knownGene'

#100 charlesgwellem opened 5 years ago
0
annotatePeak annotation and transcriptId not matching

#99 jdfreden opened 5 years ago
3
Installation error: there is no package called ‘gridGraphics’

#98 melnuesch opened 5 years ago
1
upstream/downstream did not consider 'strand'

#97 Puriney closed 5 years ago
0

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