Ecosyste.ms: Issues

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GitHub / krassowski/complex-upset issues and pull requests

#204 - Color intersections matrix and bars by degree

Issue - State: open - Opened by lemoles 3 months ago
Labels: help-request

#203 - Specifying Selected Intersections Doesn't Show Empty Intersections

Issue - State: closed - Opened by danphillips28 5 months ago - 1 comment
Labels: enhancement

#202 - Error in 'vec_slice()'

Issue - State: open - Opened by clemencerapicault 5 months ago
Labels: help-request

#201 - Error in plot_them(plot)!

Issue - State: open - Opened by katekt12 7 months ago - 3 comments
Labels: potential-bug

#200 - Define one or two groups to be compared to all other groups

Issue - State: open - Opened by SebastianHesse 7 months ago - 1 comment
Labels: enhancement

#199 - Setting order of intersections with a long list

Issue - State: open - Opened by etodd8 8 months ago
Labels: help-request

#198 - How to color points by variable not in the dataset

Issue - State: open - Opened by matthlfu 8 months ago
Labels: help-request

#197 - Bump version to 1.3.6

Pull Request - State: closed - Opened by krassowski 9 months ago

#196 - Error "The `axis.text.theta` theme element is not defined in the element hierarchy."

Issue - State: open - Opened by matthlfu 9 months ago - 2 comments
Labels: potential-bug

#195 - API seems broken after the latest updates in ggplot2 (>= 3.5.0)

Issue - State: open - Opened by federicomarini 9 months ago - 28 comments
Labels: potential-bug

#194 - Update Prepare_R.ipynb

Pull Request - State: open - Opened by jarekbryk 9 months ago

#193 - Coloring multiple *specific* insections

Issue - State: open - Opened by ashleyhappiness 10 months ago - 2 comments
Labels: help-request

#192 - Possible built-time bug in `upset_themes`

Issue - State: open - Opened by teunbrand 11 months ago
Labels: potential-bug

#191 - Deviation

Issue - State: open - Opened by jenellewallace 11 months ago
Labels: help-request

#190 - Mapping categorical values to dots in intersection matrix

Issue - State: open - Opened by mwittep 12 months ago - 1 comment
Labels: help-request

#189 - Changing the y-axis scale for intersection_size from ComplexUpset package

Issue - State: open - Opened by arunimgarg 12 months ago - 1 comment
Labels: help-request

#188 - Issue with fill colours for set sizes

Issue - State: open - Opened by spencsa about 1 year ago - 3 comments
Labels: help-request

#186 - y axis units for the intersection size and stacking plots

Issue - State: closed - Opened by evesilk about 1 year ago - 7 comments
Labels: help-request

#185 - Ordering by intersection sizes and degree

Issue - State: open - Opened by evesilk about 1 year ago - 1 comment
Labels: help-request

#184 - Set default color of dots in the matrix plot

Issue - State: open - Opened by thiagomaf about 1 year ago - 1 comment
Labels: enhancement

#183 - add intersection of the union of certain sets within the same intersection upset plot.

Issue - State: open - Opened by sid5427 about 1 year ago - 2 comments
Labels: enhancement

#182 - Add more examples

Issue - State: open - Opened by krassowski over 1 year ago
Labels: enhancement

#181 - Add `segment_outline` option

Pull Request - State: open - Opened by krassowski over 1 year ago

#180 - Memory issue when passing "intersection=" parameter to large matrix

Issue - State: closed - Opened by kaplans1 over 1 year ago - 1 comment
Labels: potential-bug

#179 - Incorrect intersection size

Issue - State: closed - Opened by bagcik1lumc over 1 year ago - 8 comments
Labels: help-request

#178 - Change axis text size and bar text size

Issue - State: open - Opened by erikagucciardo over 1 year ago - 1 comment
Labels: help-request

#177 - sort_sets user order

Issue - State: closed - Opened by kaplans1 over 1 year ago - 1 comment
Labels: enhancement

#176 - How to use fromexpression() of upsetR in complex upset?

Issue - State: open - Opened by HelloWorldLTY over 1 year ago - 1 comment
Labels: enhancement

#175 - ! `data` must be uniquely named but has duplicate columns

Issue - State: closed - Opened by a14578 over 1 year ago - 1 comment
Labels: help-request

#174 - Reduce the size of circles when the size of the global figure is diminished.

Issue - State: closed - Opened by ZheFrench almost 2 years ago - 2 comments
Labels: help-request

#173 - upset error: `strip.clip` not defined

Issue - State: closed - Opened by niehues almost 2 years ago - 2 comments
Labels: potential-bug

#172 - How can I reduce the file size of the .eps UpSet figure?

Issue - State: open - Opened by bagcik1lumc almost 2 years ago
Labels: help-request

#171 - What determines the size of the bars?

Issue - State: open - Opened by bagcik1lumc almost 2 years ago - 3 comments
Labels: help-request

#170 - How to display intersection size as percentage of total rows?

Issue - State: open - Opened by bagcik1lumc almost 2 years ago
Labels: help-request

#169 - Removed rows due to "missing values" when there are non

Issue - State: open - Opened by bagcik1lumc almost 2 years ago - 2 comments
Labels: potential-bug

#168 - Is there a way to speed up ComplexUpset for large data sets?

Issue - State: open - Opened by bagcik1lumc almost 2 years ago
Labels: help-request

#167 - How can I change the labels in the UpSet plot?

Issue - State: open - Opened by bagcik1lumc almost 2 years ago - 10 comments
Labels: documentation, help-request

#166 - complex-upset for multiple lists

Issue - State: closed - Opened by fazeliniah almost 2 years ago - 2 comments

#165 - element `strip.clip` is not defined when using upset function with documentation's dataset

Issue - State: closed - Opened by Benjamin-Valderrama about 2 years ago - 5 comments
Labels: help-request

#164 - How to list intersections, as they appear in an upset plot

Issue - State: closed - Opened by a14578 about 2 years ago - 5 comments
Labels: help-request

#163 - Minor fixes for CRAN, docs improvements, revert `linewidth` for now

Pull Request - State: closed - Opened by krassowski about 2 years ago

#162 - Add new examples, ggplot2 3.4.0 compatibility, prepare release

Pull Request - State: closed - Opened by krassowski about 2 years ago

#161 - How to change size of points and lines in matrix plot and define the color one time?

Issue - State: open - Opened by Sophia409 about 2 years ago - 2 comments
Labels: enhancement

#160 - Demo code does not show top Boxplots at all + Intersection values are also different f/your Demo Plot

Issue - State: open - Opened by sfd99 about 2 years ago - 3 comments
Labels: documentation

#159 - Always convert data to data.frame for arrange_venn

Pull Request - State: closed - Opened by maximilian-heeg about 2 years ago - 1 comment

#158 - Set names on both sides of the intersection matrix

Issue - State: closed - Opened by Julkut about 2 years ago - 2 comments
Labels: help-request

#157 - input list of genes/SNPs/clonotypes

Issue - State: closed - Opened by gt7901b over 2 years ago - 2 comments
Labels: help-request

#156 - Adding break in y-axis?

Issue - State: open - Opened by mholtz2 over 2 years ago - 2 comments
Labels: documentation

#155 - Is there a way to set a ratio (height/width) for the whole plot?

Issue - State: open - Opened by paulimer over 2 years ago - 2 comments
Labels: help-request

#154 - Guides over set sizes - align with the plots

Issue - State: open - Opened by Julkut over 2 years ago - 12 comments
Labels: help-request

#153 - Fix tests on CI (test with latest versions)

Pull Request - State: closed - Opened by krassowski over 2 years ago

#152 - Improve performance when specific intersections are requested

Pull Request - State: open - Opened by krassowski over 2 years ago

#151 - Is there any functionality to exclude few selected intersections from all possible intersections

Issue - State: open - Opened by peranti over 2 years ago - 2 comments
Labels: enhancement

#150 - How to query_upset in empty intersection

Issue - State: closed - Opened by acpguedes over 2 years ago - 1 comment
Labels: help-request

#148 - Cannot fill correct assigned colors for set size plot

Issue - State: closed - Opened by yujung-c over 2 years ago - 4 comments
Labels: help-request

#147 - ComplexUpset can not add barplots on the top since object not found

Issue - State: closed - Opened by yuewangpanda almost 3 years ago - 2 comments
Labels: help-request

#146 - Alternative Barplot

Issue - State: closed - Opened by mweberr almost 3 years ago - 2 comments
Labels: help-request

#145 - Bars not plotted when using intersection_ratio for large data

Issue - State: open - Opened by oacar almost 3 years ago - 5 comments
Labels: documentation, enhancement

#144 - Fix 0-degree intersection size for `intersections='all'` mode

Pull Request - State: closed - Opened by krassowski almost 3 years ago - 1 comment

#143 - Enable displaying degree 0 intersection with `group_by='sets'`

Pull Request - State: closed - Opened by krassowski almost 3 years ago - 1 comment

#142 - Add `orientation` argument to allow flipping axes

Pull Request - State: open - Opened by krassowski almost 3 years ago - 1 comment

#141 - group by "sets" removes bar with 0 sets

Issue - State: closed - Opened by sannagudmundsson almost 3 years ago - 2 comments
Labels: help-request

#140 - Clear memory from complexUpset plotting without having to restart Rsession

Issue - State: open - Opened by callumparr almost 3 years ago - 2 comments
Labels: help-request

#139 - How to keep sets with set size equals to zero in the plot?

Issue - State: closed - Opened by VirtualSpaceman about 3 years ago - 4 comments
Labels: bug, help-request

#138 - How to change the bar width?

Issue - State: closed - Opened by tomleung1996 over 3 years ago - 4 comments
Labels: help-request

#137 - General performance in big(ish) data

Issue - State: open - Opened by 16mc1r over 3 years ago - 6 comments
Labels: enhancement

#136 - Replace `base_annotations` with `intersection_size`

Issue - State: open - Opened by krassowski over 3 years ago - 1 comment
Labels: enhancement

#135 - flip axes

Issue - State: open - Opened by januz over 3 years ago - 4 comments
Labels: enhancement

#134 - How to save the plot with `ggsave`?

Issue - State: open - Opened by SdelciLab over 3 years ago - 1 comment
Labels: help-request

#133 - Is it possible to plot the percentage of sets?

Issue - State: closed - Opened by tomleung1996 over 3 years ago - 13 comments
Labels: help-request

#132 - Easy/programmatic way to color intersection matrix based on degree

Issue - State: open - Opened by januz over 3 years ago - 24 comments
Labels: enhancement

#131 - error: could not find function "upset_set_size"

Issue - State: closed - Opened by MilouArts over 3 years ago - 2 comments
Labels: help-request

#130 - Test coverage

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

#129 - Changed guide = FALSE to guide = "none"

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

#128 - Unexpected behaviour with missing values

Issue - State: open - Opened by krassowski over 3 years ago
Labels: potential-bug

#127 - Warning: It is deprecated to specify `guide = FALSE` to remove a guide. Please use `guide = "none"` instead.

Issue - State: closed - Opened by Axze-rgb over 3 years ago - 8 comments
Labels: good first issue

#126 - Simple case use, does it work properly?

Issue - State: closed - Opened by Axze-rgb over 3 years ago - 2 comments
Labels: help-request

#125 - How to extract subsets of elements presented in intersection bar

Issue - State: closed - Opened by cejote over 3 years ago - 5 comments
Labels: help-request

#124 - Test R 4.1

Issue - State: closed - Opened by krassowski over 3 years ago
Labels: enhancement

#123 - Fix assignment of aesthetics by `upset_query`, release 1.3.0

Pull Request - State: closed - Opened by krassowski over 3 years ago - 1 comment

#122 - Set sizes can be labelled with a colour other than expected

Issue - State: closed - Opened by krassowski over 3 years ago
Labels: bug

#121 - After installing the latest R version 4.1.0 (2021-05-18), ComplexUpset stops w/"Fatal Error" msg!

Issue - State: closed - Opened by sfd99 over 3 years ago - 6 comments
Labels: potential-bug

#120 - Cannot set custom y-label in 'inclusive_intersection' mode

Issue - State: open - Opened by sharathkmenon over 3 years ago - 2 comments
Labels: bug

#119 - Allow to query by sets on intersections matrix, improve visuals

Pull Request - State: closed - Opened by krassowski over 3 years ago - 1 comment

#118 - Expected overlaps

Pull Request - State: open - Opened by krassowski over 3 years ago - 1 comment

#117 - Fix metadata order in arrange_venn

Pull Request - State: closed - Opened by krassowski over 3 years ago - 1 comment

#116 - `arrange_venn` changes order of rows

Issue - State: closed - Opened by maximilian-heeg over 3 years ago - 3 comments
Labels: bug

#115 - how to give same color as each set and point

Issue - State: closed - Opened by Hemantcnaik over 3 years ago - 1 comment
Labels: help-request

#114 - Add conda install instruction and version badge

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

#113 - geom_segment has outline sometimes

Issue - State: closed - Opened by BastiDucreux over 3 years ago - 2 comments
Labels: help-request

#112 - Improve performance for manually-specified intersections

Issue - State: open - Opened by krassowski over 3 years ago
Labels: enhancement

#111 - Enable further customization of stripes

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

#110 - Fix incorrect labels when using encode_sets=TRUE

Pull Request - State: closed - Opened by krassowski over 3 years ago - 1 comment

#109 - Improve manually-specified intersections support

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

#108 - Set name encoding produces incorrect output

Issue - State: closed - Opened by arcresu over 3 years ago - 4 comments
Labels: bug

#107 - Remove white space between sets

Issue - State: closed - Opened by BastiDucreux over 3 years ago - 1 comment
Labels: help-request

#106 - Replacing counts over interaction size bar plot

Issue - State: closed - Opened by BastiDucreux over 3 years ago - 2 comments
Labels: help-request