jianhong/ChIPpeakAnno issues and pull requests

#41 - opened in error

Issue - State: closed - Opened by joshua-theisen 4 months ago

#40 - minor fix to resolve the seqlevelsStyle() issue

Pull Request - State: closed - Opened by hukai916 5 months ago

#39 - minor fixes for 3.36.0

Pull Request - State: closed - Opened by hukai916 5 months ago - 1 comment

#38 - handle the biofilecache error

Pull Request - State: closed - Opened by hukai916 6 months ago

#37 - update vignettes, summarizePatternInPeaks, bump to 3.38.1, etc.

Pull Request - State: closed - Opened by hukai916 6 months ago

#36 - Regarding oligoSummary()

Issue - State: open - Opened by hukai916 8 months ago - 1 comment

#35 - makeVennDiagram produces undesired console output

Issue - State: closed - Opened by drighelli 8 months ago - 6 comments

#34 - hello，I don't know how to deal with it，can you help me figure it out. thanks

Issue - State: open - Opened by Rachel12138 10 months ago - 8 comments

#33 - Devel

Pull Request - State: closed - Opened by JunhuiLi1017 10 months ago - 2 comments

#32 - update doc of annotatePeakInBath

Pull Request - State: closed - Opened by hukai916 12 months ago - 1 comment

#31 - Handle edge cases

Pull Request - State: closed - Opened by hukai916 over 1 year ago - 2 comments

#30 - cvglists rtracklayer import error: Error in stop_if_wrong_length(what, ans_len) 'ranges' must have the length of the object to construct

Issue - State: open - Opened by c2b2pss over 1 year ago - 4 comments

#29 - Minor changes

Pull Request - State: closed - Opened by hukai916 over 1 year ago

#28 - makeVennDiagram fails with error 'Unexpected parameter length for "col"'

Issue - State: closed - Opened by joshua-theisen over 1 year ago - 4 comments

#27 - oligoSummary not populating the motif matrix output field

Issue - State: closed - Opened by jesswhitts over 1 year ago - 2 comments

#26 - How to set the circle size same proportion of the number of peaks when there are more than 2 sets using `makeVennDiagram`?

Issue - State: closed - Opened by danli349 over 1 year ago - 5 comments

#25 - `findOverlapsOfPeaks(gr1, gr2)` Error in FUN(X[[i]], ...) : Inputs contains duplicated ranges. please recheck your inputs.

Issue - State: open - Opened by danli349 over 1 year ago - 6 comments

#24 - Revert "oligoNucleotideEnrichment function is added for oligoNucleotide enric…"

Pull Request - State: closed - Opened by jianhong over 1 year ago

#23 - oligoNucleotideEnrichment function is added for oligoNucleotide enric…

Pull Request - State: closed - Opened by JunhuiLi1017 over 1 year ago

#22 - How to understand otherExon

Issue - State: open - Opened by lbwfff over 1 year ago - 7 comments

#21 - disjointExons removed in Bioconductor 3.17

Issue - State: closed - Opened by yeyuan98 over 1 year ago - 1 comment

#20 - Add CSV support toGRanges

Pull Request - State: closed - Opened by hukai916 almost 2 years ago

#19 - use 'entrez_id' instead of 'EntrezID' for getEnrichedPATH() output

Pull Request - State: closed - Opened by hukai916 almost 2 years ago

#18 - Differences between bedtools overlap / findOverlaps and findOverlapsOfPeaks

Issue - State: open - Opened by csijcs over 2 years ago - 10 comments

#17 - toGRanges() can't read in file name

Issue - State: closed - Opened by hukai916 over 2 years ago - 1 comment

#16 - error in enrichmentPlot() when providing a partially empty GO object

Issue - State: closed - Opened by spribitzer almost 3 years ago - 1 comment

#15 - Questions on the how genomicElementDistribution works

Issue - State: open - Opened by Kyung-TaeLee almost 3 years ago - 1 comment

#14 - toGRanges() no longer working in response to UCSC update

Issue - State: closed - Opened by jardplard about 3 years ago - 3 comments

#13 - Error with `bindingType` in `annotatePeakInBatch`

Issue - State: open - Opened by rbenel about 3 years ago - 2 comments

#12 - add documentation for getAnnotation() function

Pull Request - State: closed - Opened by hukai916 over 3 years ago

#11 - genomicElementDistribution not found

Issue - State: open - Opened by Hemantcnaik over 3 years ago - 5 comments

#10 - invalid class "CompressedGRangesList" object

Issue - State: open - Opened by GBeattie over 3 years ago - 1 comment

#9 - save featureAlignedHeatmap output to picture file ?

Issue - State: open - Opened by jupollet over 3 years ago - 2 comments

#8 - Annotation for dm6 does not contain gene_name

Issue - State: closed - Opened by ashleymaeconard over 3 years ago - 2 comments

#7 - genomicElementDistribution

Issue - State: open - Opened by GerardoZA over 3 years ago - 1 comment

#6 - Bug in makeVennDiagram.R

Issue - State: closed - Opened by adamd3 almost 4 years ago - 1 comment

GitHub / jianhong/ChIPpeakAnno issues and pull requests