Ecosyste.ms: Issues

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GitHub / enblacar/SCpubr issues and pull requests

#80 - splitting featureplot without background cells from other condition

Issue - State: closed - Opened by supersonSoge 3 months ago - 6 comments

#79 - No do_LigandReceptorPlot

Issue - State: closed - Opened by LMarshx 5 months ago - 2 comments

#78 - REQUEST | do_RidgePlot | Extending Data Lines

Issue - State: closed - Opened by KKnowles222 5 months ago - 2 comments

#77 - REQUEST | subgroups in dotplot

Issue - State: closed - Opened by TdzBAS 6 months ago - 3 comments

#76 - label.font only works for legend but not for labels shown on umap

Issue - State: closed - Opened by TdzBAS 6 months ago - 4 comments

#74 - Violin Feature Plots

Issue - State: closed - Opened by TdzBAS 6 months ago - 2 comments

#73 - REQUEST | doDimPlot | Plot NA values of grouping values in background

Issue - State: closed - Opened by jaakoobb 7 months ago - 1 comment

#72 - Added parameter to adjust the size of gene tags

Pull Request - State: closed - Opened by nbpeterson3 7 months ago - 1 comment

#71 - Fix for do_VolcanoPlot when order_tags_by = "both"

Pull Request - State: closed - Opened by nbpeterson3 7 months ago - 3 comments

#70 - Seurat v5 Support

Issue - State: closed - Opened by shahrozeabbas 7 months ago - 4 comments

#69 - BUG | do_FeaturePlot | scale = T stopped working

Issue - State: closed - Opened by laleaton 7 months ago - 3 comments

#68 - BUG | do_FeaturePlot | The legend titles are not displayed anymore

Issue - State: closed - Opened by frac2738 7 months ago - 7 comments

#67 - Fix typo | do_ViolinPlot | Spelling Error

Issue - State: closed - Opened by maximelepetit 7 months ago - 1 comment

#66 - Show Genenames in featureplot for feature vector

Issue - State: closed - Opened by TdzBAS 9 months ago - 5 comments

#65 - How to create custom mappings from p-values to annotation for BoxPlot

Issue - State: closed - Opened by NicoHadas 9 months ago - 1 comment

#64 - REQUEST | do_DotPlot | Reqeuest for the option "dot.min".

Issue - State: closed - Opened by DiceOfEugene 10 months ago - 1 comment

#63 - BUG | do_VolcanoPlot | add gene tags based on logFC + pvalue

Issue - State: closed - Opened by StefanosVoglis 10 months ago - 1 comment

#62 - BUG | do_FeaturePlot | diverging.palette argument is not working

Issue - State: closed - Opened by venkan 10 months ago - 8 comments

#61 - REQUEST | do_DotPlot | Allow duplicated features

Issue - State: closed - Opened by frac2738 10 months ago - 1 comment

#60 - REQUEST | do_DimPlot | Create UMAP with Table

Issue - State: closed - Opened by shahrozeabbas 10 months ago - 1 comment

#58 - Extract coordinated from do_CellularStatesPlot

Issue - State: closed - Opened by ccruizm 12 months ago - 2 comments

#57 - do_DiffusionMapPlot returns empty plots

Issue - State: closed - Opened by ccruizm 12 months ago - 2 comments

#56 - REQUEST | do_featureplot | shared espression of One or more genes

Issue - State: closed - Opened by feanaros 12 months ago - 1 comment

#52 - Output of Featureplot and Dimplot are of different size

Issue - State: closed - Opened by TdzBAS about 1 year ago - 1 comment

#51 - Added a parameter add_tag_side to do_VolcanoPlot

Pull Request - State: closed - Opened by Safwat08 about 1 year ago - 2 comments

#50 - do_AzimuthAnalysisPlot is not an exported object from 'namespace:SCpubr'

Issue - State: closed - Opened by MWRR about 1 year ago - 3 comments

#49 - do_DotPlot Sequential palette, diverging, white on extreme low end

Issue - State: closed - Opened by ShashTrip1 about 1 year ago - 1 comment

#48 - do_GroupwiseDEPlot with output of FindConservedMarkers

Issue - State: closed - Opened by olivermccallion about 1 year ago - 1 comment

#47 - Where is the function do_AzimuthAnalysisPlot

Issue - State: closed - Opened by ehatl about 1 year ago - 1 comment

#46 - REQUEST | do_ViolinPlot | I want order to be added

Issue - State: closed - Opened by christinepich about 1 year ago - 2 comments

#45 - REQUEST | do_DimPlot | using "split.by" I do not want to see a "combined" plot

Issue - State: closed - Opened by Elo-mars about 1 year ago - 4 comments

#43 - [do_DimPlot] add an option to hide the "combined" view

Issue - State: closed - Opened by frac2738 over 1 year ago - 2 comments

#42 - Prepare for upcoming Seurat v5 release

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

#41 - BUG | do_EnrichmentHeatmap | features.order not working?

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

#39 - Replace `.GetAssayData()` with `SeuratObject::GetAssayData()`

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

#38 - BUG | `.GetAssayData` | Incorrect assumptions about SeuratObject versions

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

#37 - check_suggests does not print missing package names | check_suggests

Issue - State: closed - Opened by timwoo102 over 1 year ago - 1 comment

#35 - background of label in DimPlot

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

#34 - "Undefined columns selected" | do_FunctionalAnnotationPlot | Function doesn't run

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

#33 - BUG | FUNCTION NAME | BRIEF DESCRIPTION

Issue - State: closed - Opened by LeoBLMitz over 1 year ago - 5 comments
Labels: bug

#32 - Marking Frequency % inside Barplot stacks

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

#31 - BUG | do_LigandReceptorPlot() |"arrange_interactions_by = both" implementation

Issue - State: closed - Opened by RMOsborn012 almost 2 years ago - 1 comment
Labels: enhancement

#30 - Error using do_DimPlot when using split.by

Issue - State: closed - Opened by ccruizm almost 2 years ago - 2 comments
Labels: bug, question

#29 - Share SCpubr book for version 1.1.2

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

#28 - Error: 'save_Plot' is not an exported object from 'namespace:SCpubr'

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

#27 - Changing colors

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

#26 - Error using do_GroupwiseDEPlot

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

#25 - Change font size in do_PathwayActivityPlot

Issue - State: closed - Opened by france-hub almost 2 years ago - 1 comment

#24 - 'do_SankeyPlot' is not an exported object from 'namespace:SCpubr'

Issue - State: closed - Opened by tqh003 almost 2 years ago - 2 comments

#23 - How to present cell communication results in groups

Issue - State: closed - Opened by tu12dou almost 2 years ago - 3 comments

#22 - do_DimPlot: sizes.highlight not working when raster = TRUE

Issue - State: closed - Opened by dfernandezperez almost 2 years ago - 1 comment

#21 - Replacing LIANA's plots with SCpubr

Issue - State: closed - Opened by dbdimitrov about 2 years ago - 2 comments

#19 - Chord plots error

Issue - State: closed - Opened by rbutleriii about 2 years ago - 3 comments

#18 - pseudotime Analysis

Issue - State: closed - Opened by hmlopezbertoni about 2 years ago - 2 comments

#17 - colors.use not working with split.by in do_DimPlot

Issue - State: closed - Opened by fatimasnc about 2 years ago - 5 comments

#16 - do_LigandReceptorPlot Source/Target order

Issue - State: closed - Opened by Projectnix about 2 years ago - 1 comment

#15 - The "do_alluvialplot" function is not working

Issue - State: closed - Opened by hmlopezbertoni about 2 years ago - 3 comments

#14 - label.size parameter missing

Issue - State: closed - Opened by dfernandezperez about 2 years ago - 2 comments

#13 - "n_genes" didnt label correct number of genes in both side in "do_VolcanoPlot"

Issue - State: closed - Opened by synapse73 about 2 years ago - 4 comments

#12 - Error with Sankey Plot

Issue - State: closed - Opened by JessicaP94 about 2 years ago - 4 comments

#11 - Error: 'do_ExpressionHeatmap' is not an exported object from 'namespace:SCpubr'

Issue - State: closed - Opened by kaizen89 about 2 years ago - 3 comments

#10 - label clusters in do_FeaturePlot

Issue - State: closed - Opened by KalinNonchev about 2 years ago - 4 comments
Labels: enhancement

#9 - UCell support instead of AddModuleScore?

Issue - State: closed - Opened by cnk113 over 2 years ago - 12 comments
Labels: enhancement

#8 - Question about Ridge plots

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

#6 - Feature Request: Multiple Features for do_RidgePlot

Issue - State: closed - Opened by w2felix over 2 years ago - 3 comments

#5 - Feature request: group.by + split.by functionality to do_ViolinPlot.

Issue - State: closed - Opened by AlicePsyche over 2 years ago - 5 comments
Labels: enhancement

#4 - split.by variable independent from colour variable

Issue - State: closed - Opened by Dario-Rocha over 2 years ago - 4 comments
Labels: enhancement

#3 - Error while running do_GroupwiseDEPlot()

Issue - State: closed - Opened by aditisk over 2 years ago - 7 comments
Labels: bug

#2 - Feature request: add min/max cutoff do_FeaturePlot

Issue - State: closed - Opened by ccruizm over 2 years ago - 4 comments
Labels: enhancement

#1 - test

Pull Request - State: closed - Opened by Christian-Heyer almost 3 years ago