Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / Bioconductor/GenomicRanges issues and pull requests
#84 - Add dummyfile.txt
Pull Request -
State: closed - Opened by namhoangubs 6 months ago
- 2 comments
#83 - subtract documentation
Issue -
State: open - Opened by gevro 9 months ago
- 6 comments
#82 - use empty strand when seqnames are also empty, closes #81
Pull Request -
State: closed - Opened by LiNk-NY 11 months ago
- 1 comment
#81 - Bug in makeGRangesFromDataFrame from empty data table
Issue -
State: closed - Opened by gevro 12 months ago
- 2 comments
#80 - is this an expected `gaps` behaviour?
Issue -
State: closed - Opened by oleksii-nikolaienko 12 months ago
- 7 comments
#79 - RleList subsetting has integer overflow on mammal genomes
Issue -
State: open - Opened by alexfriman about 1 year ago
#78 - "object 'fancy_mseq' not found" when using "setdiff"
Issue -
State: closed - Opened by Leo-ccc over 1 year ago
- 5 comments
#77 - Could `GenomicRanges::binnedAverage()` be reused for other purposes?
Issue -
State: open - Opened by ssayols over 1 year ago
- 4 comments
#76 - Error in getListElement(x, i, ...) : GRanges objects don't support [[, as.list(), lapply(), or unlist() at the moment
Issue -
State: open - Opened by AntoniaChroni over 1 year ago
- 17 comments
#75 - Printing error with CompressedGRangesList
Issue -
State: closed - Opened by llrs over 1 year ago
- 3 comments
#74 - nearestKNeighbors does not handle seqlevel pruning
Issue -
State: open - Opened by yeyuan98 over 1 year ago
- 2 comments
#73 - Add `rworkflows` to test/document `GenomicRanges` in GitHub Actions
Pull Request -
State: closed - Opened by bschilder almost 2 years ago
- 27 comments
#72 - avoid duplicate chunk names in Ten_things_slides.Rnw
Pull Request -
State: closed - Opened by LiNk-NY almost 2 years ago
- 1 comment
#71 - drop.self and drop.redundant for Genomic Ranges
Issue -
State: closed - Opened by DarioS almost 2 years ago
- 3 comments
#70 - findOverlaps appears inconsistent
Issue -
State: closed - Opened by cb4github almost 2 years ago
- 4 comments
#69 - Convert ExtendingGenomicRanges.Rnw to .Rmd
Pull Request -
State: open - Opened by hsadia538 almost 2 years ago
- 7 comments
#68 - subtract for two GRangesList
Issue -
State: closed - Opened by gevro about 2 years ago
- 2 comments
#67 - setdiff not behaving as expected
Issue -
State: open - Opened by gevro about 2 years ago
#66 - Representing missing ranges
Issue -
State: open - Opened by LiNk-NY over 2 years ago
#65 - In v1.46.1 seqnames changed when added to GRangesList
Issue -
State: closed - Opened by peterch405 over 2 years ago
- 9 comments
#64 - Annotate each range in a Granges object with a vector
Issue -
State: closed - Opened by gevro over 2 years ago
- 1 comment
#63 - Strange integer overflow issue
Issue -
State: closed - Opened by gevro over 2 years ago
- 2 comments
#62 - Unexpected behavior of setdiff
Issue -
State: closed - Opened by gevro over 2 years ago
- 6 comments
#61 - Cannot unset strict.strand in intersect
Issue -
State: closed - Opened by kewiechecki almost 3 years ago
- 1 comment
#60 - Added a findOverlap method for character vectors.
Pull Request -
State: open - Opened by LTLA about 3 years ago
- 2 comments
#59 - add na.rm argument to makeGRangesFromDataFrame
Pull Request -
State: closed - Opened by LiNk-NY over 3 years ago
- 5 comments
#58 - makeGRangesFromDataFrame check for missing cells before sending to IRanges
Issue -
State: closed - Opened by liutiming over 3 years ago
- 2 comments
#57 - Could we directly save the metadata when we use the function makeTxDbFromGFF?
Issue -
State: open - Opened by Codezy99 over 3 years ago
#56 - problems with AtomicList in mcols in Rdevel
Issue -
State: closed - Opened by plger over 3 years ago
- 3 comments
#55 - findOverlaps is reporting overlaps that are not actual overlaps
Issue -
State: closed - Opened by kac2053 over 3 years ago
- 2 comments
#54 - Making seqinfo<- easier to use with new levels
Issue -
State: closed - Opened by LTLA over 3 years ago
- 16 comments
#53 - Document and export get_out_of_bound_index
Issue -
State: open - Opened by rpolicastro over 3 years ago
- 2 comments
#52 - overlaps with character arguments as seqlevels?
Issue -
State: open - Opened by LTLA over 3 years ago
#51 - GRanges gives 'Error in getListElement' when creating objects
Issue -
State: open - Opened by zhezhenwang over 3 years ago
#50 - replace KEGG.db usage with KEGGREST and fix a makeGRangesFromDataFrame.Rd example
Pull Request -
State: closed - Opened by vjcitn over 3 years ago
- 3 comments
#49 - plan for dealing with loss of KEGG.db?
Issue -
State: closed - Opened by vjcitn almost 4 years ago
- 1 comment
#48 - Can't create GRanges Object with more than 11 peaks
Issue -
State: closed - Opened by eonurk almost 4 years ago
- 2 comments
#47 - GRanges Error: "Error in dimnames(x) <- dn : length of 'dimnames' [1] not equal to array extent"
Issue -
State: closed - Opened by ahorn720 almost 4 years ago
- 6 comments
#46 - GPos doesn't survive round-trip conversion to data.frame
Issue -
State: open - Opened by PeteHaitch about 4 years ago
- 2 comments
#45 - numeric meta column collapsed for connecting ranges when converting from Rle to GRanges
Issue -
State: closed - Opened by ruqianl about 4 years ago
- 1 comment
#44 - pc Performance Slow for Two GRangesList
Issue -
State: open - Opened by DarioS about 4 years ago
- 4 comments
#43 - Enhancement: Promoters Calculated Don't Overlap with Other Genes
Issue -
State: open - Opened by DarioS about 4 years ago
- 3 comments
Labels: enhancement
#42 - GenomicRanges::findKNN masks BiocNeighbors::findKNN
Issue -
State: closed - Opened by LTLA about 4 years ago
#41 - Error in getListElement(x, i, ...)
Issue -
State: closed - Opened by PeggySze over 4 years ago
- 4 comments
#40 - Add FindKnn funcitonality
Pull Request -
State: closed - Opened by dvantwisk over 4 years ago
#39 - coverage() with small weight values returns non-zero values over empty positions
Issue -
State: closed - Opened by mdeber over 4 years ago
- 5 comments
#38 - Integrate Felix's changes and add unit tests, closes #35
Pull Request -
State: closed - Opened by LiNk-NY over 4 years ago
#37 - import error
Issue -
State: closed - Opened by xuebaliang over 4 years ago
- 2 comments
#36 - Errors attempting GenomicRanges:::findKNN()
Issue -
State: closed - Opened by ShanSabri over 4 years ago
- 3 comments
#35 - fixed makeGRangesFromDataFrame() for zero length DataFrame
Pull Request -
State: closed - Opened by FelixErnst over 4 years ago
- 1 comment
#34 - gpos/GPos equivalent for granges/GRanges
Issue -
State: closed - Opened by MalteThodberg over 4 years ago
- 2 comments
#33 - strange code for GenomicRanges:::compatibleStrand
Issue -
State: open - Opened by msannell over 4 years ago
- 1 comment
#32 - expand makeGRangesFromDataFrame functionality
Pull Request -
State: open - Opened by LiNk-NY over 4 years ago
- 5 comments
#31 - no convenient SimpleGRangesList to CompressedGRangesList as function
Issue -
State: closed - Opened by LiNk-NY almost 5 years ago
- 2 comments
#30 - inner and outer mcols for GRangesFactor
Issue -
State: open - Opened by LTLA over 5 years ago
- 1 comment
#29 - GPos - Error in getClass(x) : “UnstitchedGPos” is not a defined class
Issue -
State: closed - Opened by peterblattmann over 5 years ago
- 1 comment
#28 - Specialize findOverlaps for GRangesFactor objects
Pull Request -
State: open - Opened by LTLA over 5 years ago
- 3 comments
#27 - Error in mapToTranscripts
Issue -
State: closed - Opened by weir12 over 5 years ago
- 2 comments
#26 - GRangesFactor should inherit from GenomicRanges
Issue -
State: open - Opened by hpages over 5 years ago
#25 - Add GRangesFactor class
Issue -
State: closed - Opened by hpages over 5 years ago
- 10 comments
#24 - Inefficiency of GPos("chr1:1-4e8") with GenomicRanges 1.37.7
Issue -
State: closed - Opened by hpages over 5 years ago
- 1 comment
#23 - Feature request: make mcols on a GRangesList return a SplitDataFrameList
Issue -
State: closed - Opened by FelixErnst over 5 years ago
- 3 comments
#22 - Making it easier to convert from IGV coordinates
Issue -
State: open - Opened by Roleren over 5 years ago
#21 - Export GenomicRanges object as gtf file
Issue -
State: closed - Opened by roosheelpatel over 5 years ago
- 1 comment
#20 - coercion from character vector to GRanges does not report the faulty string
Issue -
State: open - Opened by hpages over 5 years ago
#19 - Bug in follow and precede
Issue -
State: closed - Opened by LuukHenk almost 6 years ago
- 1 comment
#18 - annoying warning when `as.data.frame(..., stringsAsFactors=F)`-ing on GRanges object
Issue -
State: closed - Opened by gwangjinkim almost 6 years ago
- 7 comments
#17 - gaps and GRangesList
Issue -
State: open - Opened by kasperdanielhansen almost 6 years ago
- 3 comments
#16 - findOverlaps with type="equal" and a GRangesList
Issue -
State: open - Opened by kasperdanielhansen almost 6 years ago
- 6 comments
#15 - propagating names from RangesList to GRanges
Issue -
State: closed - Opened by lawremi almost 6 years ago
- 4 comments
#14 - Support distance() / nearest() for circular chromosomes
Issue -
State: closed - Opened by vobencha almost 6 years ago
- 2 comments
#13 - Feature request: GPos() constructor can make a GPos object from an IPos object
Issue -
State: closed - Opened by hpages almost 6 years ago
- 1 comment
#12 - Feature request: make intra- and inter- range transformations work on GPos objects
Issue -
State: open - Opened by hpages almost 6 years ago
#11 - Speed difference in way you add mcols to GRanges
Issue -
State: closed - Opened by Roleren about 6 years ago
- 4 comments
#10 - vignettes/GenomicRangesIntroduction.Rmd
Pull Request -
State: closed - Opened by lwaldron about 6 years ago
- 1 comment
#9 - GRangesList fails with named arguments
Issue -
State: closed - Opened by LTLA over 6 years ago
- 2 comments
#8 - Unit tests succeed but for the wrong reason
Issue -
State: closed - Opened by mtmorgan over 6 years ago
- 2 comments
#7 - 'update' methods need exporting?
Issue -
State: closed - Opened by mtmorgan over 6 years ago
- 1 comment
#6 - Easy access to inner metadata of a GRangesList
Issue -
State: open - Opened by LTLA over 6 years ago
- 7 comments
#5 - Fix typos in intra-range-methods.Rd
Pull Request -
State: closed - Opened by PeteHaitch over 6 years ago
- 1 comment
#4 - IRanges promoters changes coming to GenomicRanges?
Issue -
State: closed - Opened by PeteHaitch over 6 years ago
- 2 comments
#3 - Equisplit
Pull Request -
State: closed - Opened by alexandremkuhn over 6 years ago
- 9 comments
#2 - Sorting a SortedByQueryHits produces a Hits
Issue -
State: closed - Opened by LTLA almost 7 years ago
- 1 comment
#1 - Some fixes I would like
Issue -
State: closed - Opened by Roleren almost 7 years ago
- 1 comment