databio/genomicdistributions issues and pull requests

#96 - put percents into main plot, allow for unnamed query lists

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#95 - Release 0.8.0

Pull Request - State: closed - Opened by nsheff over 4 years ago - 2 comments

#94 - Rbuild ignore data-raw?

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment
Labels: likely-fixed

#93 - feature distance and partition plot defaults

Issue - State: closed - Opened by nsheff over 4 years ago

#92 - Gene models for partition plots not building properly

Issue - State: closed - Opened by kkupkova over 4 years ago - 13 comments
Labels: bug

#91 - document distances plot function, add it to the vignette

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#90 - percentage partition plots questions

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment

#89 - Showcase example set

Issue - State: closed - Opened by nsheff over 4 years ago - 2 comments

#88 - GC content multi-plot questions

Issue - State: closed - Opened by nsheff over 4 years ago - 4 comments

#87 - Replace BSAggregate

Pull Request - State: closed - Opened by j-lawson over 4 years ago - 10 comments

#86 - partition plot stray printouts

Issue - State: closed - Opened by nsheff over 4 years ago

#85 - R check warnings

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment

#84 - error when running tiled feature distance plot in vignette

Issue - State: closed - Opened by joseverdezoto over 4 years ago - 2 comments

#83 - fix bug in percent plot, add to vignette

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago - 2 comments

#82 - error in plotPartitionPercents

Issue - State: closed - Opened by nsheff over 4 years ago - 3 comments

#81 - Names of vignette chunks for images

Issue - State: closed - Opened by nsheff over 4 years ago - 2 comments
Labels: docs, likely-fixed

#80 - document new functions

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#79 - plot more than 1 regionset, include resDiffAveNorm plot, update calcPartRef function

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#78 - add partition percentage calculation and plot

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#77 - Comparison to other software

Issue - State: closed - Opened by nsheff over 4 years ago

#76 - handling narrow widths distribution in plotQThist

Issue - State: closed - Opened by joseverdezoto over 4 years ago - 2 comments

#75 - Reducing data footprint of package

Issue - State: closed - Opened by nsheff over 4 years ago - 17 comments
Labels: likely-fixed

#74 - Any way to speed up tests?

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment

#73 - Release 0.7.1

Pull Request - State: closed - Opened by nsheff over 4 years ago

#72 - add unit test; Fix #70

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago - 9 comments

#71 - Handle no overlaps correctly when plotting

Pull Request - State: closed - Opened by jpsmith5 over 4 years ago

#70 - extremely verbose function output

Issue - State: closed - Opened by stolarczyk over 4 years ago - 1 comment

#69 - Ideas for new plots

Issue - State: closed - Opened by joseverdezoto over 4 years ago
Labels: brainstorming

#68 - fix DTNearest test error, add additional test

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago - 2 comments

#67 - Switch raw partition plots to percentage

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment
Labels: enhancement

#66 - tests failing

Issue - State: closed - Opened by nsheff over 4 years ago - 9 comments

#65 - v0.7

Pull Request - State: closed - Opened by nsheff over 4 years ago

#64 - Add example graphs to documentation?

Issue - State: closed - Opened by endrebak over 4 years ago - 5 comments

#63 - Add cumulative and expected partition distribution plots

Pull Request - State: closed - Opened by jpsmith5 over 4 years ago - 4 comments

#62 - few GC content plotting format improvements

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#61 - Ideas for visualizing clustering of regions in set

Issue - State: closed - Opened by nsheff over 4 years ago - 16 comments
Labels: enhancement, brainstorming

#60 - error in calcChromBinsRef

Issue - State: closed - Opened by stolarczyk over 4 years ago - 1 comment
Labels: bug, likely-fixed

#59 - fix typo in BSgenome class validation

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago - 1 comment

#58 - Finish partition percentage plots

Issue - State: closed - Opened by nsheff over 4 years ago - 3 comments
Labels: enhancement

#57 - Data source for included reference data

Issue - State: closed - Opened by nsheff over 4 years ago - 3 comments
Labels: brainstorming

#56 - replace sapply with vapply args in chrom-plots

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago - 1 comment

#55 - missing data in package

Issue - State: closed - Opened by nsheff over 4 years ago - 10 comments

#54 - pre-computing vignettes

Issue - State: closed - Opened by nsheff over 4 years ago - 4 comments

#53 - Feat frifdata

Pull Request - State: closed - Opened by jpsmith5 over 4 years ago - 1 comment

#52 - Dev

Pull Request - State: closed - Opened by nsheff over 4 years ago

#51 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago - 2 comments

#50 - few sapply fixed

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#49 - idea - distance to TSS vs. peak width scatter plot

Issue - State: closed - Opened by kkupkova about 5 years ago - 1 comment
Labels: plot-type

#48 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#47 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#46 - fix bug, add examples

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#45 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#44 - fix class check bug in calcPartitions

Pull Request - State: closed - Opened by stolarczyk over 4 years ago

#43 - Adding QThist to the vignette

Pull Request - State: closed - Opened by tdanehy over 4 years ago

#42 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#41 - Error in calcPartitions

Issue - State: closed - Opened by stolarczyk over 4 years ago - 7 comments
Labels: bug, likely-fixed

#40 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#39 - adding gridExtra

Pull Request - State: closed - Opened by tdanehy over 4 years ago

#38 - adding gridExtra

Pull Request - State: closed - Opened by tdanehy over 4 years ago

#37 - Adding documentation and making function recursive

Pull Request - State: closed - Opened by tdanehy over 4 years ago

#36 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago

#35 - Input checks

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago

#34 - Open chromatin signal

Pull Request - State: closed - Opened by nsheff over 4 years ago

#33 - FRiF and cFRiF plotting functions

Pull Request - State: closed - Opened by jpsmith5 over 4 years ago - 3 comments

#32 - continuous integration

Issue - State: closed - Opened by stolarczyk over 4 years ago - 4 comments
Labels: enhancement

#31 - gc_content plot

Pull Request - State: closed - Opened by joseverdezoto over 4 years ago - 1 comment

#30 - use percentage of regions in plotFeatureDist

Pull Request - State: closed - Opened by stolarczyk over 4 years ago

#29 - add GC content plot to vignette

Pull Request - State: closed - Opened by nsheff over 4 years ago

#28 - Conform to Bioconductor guidelines

Issue - State: open - Opened by j-lawson over 4 years ago - 3 comments

#27 - Featdist

Pull Request - State: closed - Opened by nsheff over 4 years ago

#26 - Improve documentation

Issue - State: closed - Opened by j-lawson over 4 years ago - 1 comment

#25 - chrombins plot orientation error

Issue - State: closed - Opened by nsheff over 4 years ago - 2 comments
Labels: bug

#24 - Plots for bedsets

Issue - State: open - Opened by joseverdezoto over 4 years ago
Labels: enhancement

#23 - Input checks

Issue - State: closed - Opened by j-lawson over 4 years ago - 4 comments

#22 - Make Feature distance distribution more accurate

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment
Labels: enhancement

#21 - More comprehensive unit tests

Issue - State: closed - Opened by j-lawson over 4 years ago - 9 comments

#20 - Feature distance distribution plots, switch to percentage

Issue - State: closed - Opened by nsheff over 4 years ago - 3 comments
Labels: enhancement

#19 - Relative location trend plots

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment
Labels: plot-type

#18 - Tissue specificity plots

Issue - State: closed - Opened by nsheff over 4 years ago - 1 comment
Labels: plot-type, likely-fixed

#17 - Relative partition distributions

Issue - State: closed - Opened by nsheff over 4 years ago - 4 comments
Labels: plot-type, likely-fixed

#16 - Open chromatin signal

Pull Request - State: closed - Opened by kkupkova over 4 years ago - 3 comments

#15 - FRIF plots

Issue - State: closed - Opened by nsheff almost 5 years ago - 1 comment
Labels: plot-type, likely-fixed

#14 - create Quantile Trimmed Histogram

Pull Request - State: closed - Opened by tdanehy almost 5 years ago - 2 comments

#13 - Plot for ethnic/geographic genetic variation of genomic region

Issue - State: open - Opened by j-lawson almost 5 years ago - 5 comments
Labels: enhancement, plot-type

#12 - Error if chromosome annotation in query doesn't match chromosomes list for bins plot

Issue - State: closed - Opened by joseverdezoto about 5 years ago - 8 comments
Labels: bug

#11 - potential typo

Pull Request - State: closed - Opened by nsheff about 5 years ago

#10 - Suggested plot: basic stats

Issue - State: closed - Opened by nsheff about 5 years ago - 4 comments
Labels: plot-type

#9 - add GCContent plot to vignette

Issue - State: closed - Opened by nsheff about 5 years ago
Labels: docs

#8 - Calc gc content ref bug

Pull Request - State: closed - Opened by oddodaoddo about 5 years ago

#7 - Dev

Pull Request - State: closed - Opened by nsheff about 5 years ago

#6 - cannot install GenomicDistributions with devtools::install_github

Issue - State: closed - Opened by DzLGasoline about 5 years ago - 2 comments
Labels: invalid

#5 - Error: Failed to install 'GenomicDistributions' from GitHub

Issue - State: closed - Opened by qiaowei-vvjoe over 5 years ago - 2 comments

#4 - Rename functions for calc consistency.

Pull Request - State: closed - Opened by nsheff over 5 years ago

#3 - R CMD check warning re: size

Issue - State: closed - Opened by nsheff over 5 years ago - 3 comments

#2 - add mm9

Issue - State: closed - Opened by nsheff over 6 years ago - 1 comment

#1 - 0.3 release

Pull Request - State: closed - Opened by nsheff over 6 years ago

GitHub / databio/genomicdistributions issues and pull requests