Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / baderlab/autoannotateapp issues and pull requests

#84 - Font selector

Issue - State: closed - Opened by mikekucera over 7 years ago - 1 comment
Labels: enhancement

#83 - Easy mode

Issue - State: closed - Opened by mikekucera over 7 years ago
Labels: enhancement

#82 - Add ability to annotate singletons

Issue - State: closed - Opened by risserlin over 7 years ago
Labels: enhancement

#81 - create summary network - missing singletons

Issue - State: closed - Opened by risserlin over 7 years ago - 2 comments
Labels: bug, duplicate

#79 - CreateAnnotationSetDialog width is affected by column names

Issue - State: closed - Opened by mikekucera almost 8 years ago
Labels: bug

#78 - do autoannotate cluster/annotate hidden nodes?

Issue - State: closed - Opened by veroniquevoisin almost 8 years ago - 1 comment
Labels: bug

#77 - Images for readme

Issue - State: closed - Opened by mikekucera about 8 years ago

#76 - Use nice gray panels in Create Annotation Set Dialog

Issue - State: closed - Opened by mikekucera about 8 years ago
Labels: enhancement

#75 - Annotations redraw when not needed

Issue - State: closed - Opened by mikekucera about 8 years ago - 1 comment
Labels: bug

#74 - enhancement: be able to save an autoannoted collapsed network (.cys file)

Issue - State: closed - Opened by veroniquevoisin about 8 years ago - 1 comment

#73 - enhancement: be able to save as .txt the list of annotated clusters

Issue - State: closed - Opened by veroniquevoisin about 8 years ago - 2 comments
Labels: enhancement

#72 - Test issue

Issue - State: closed - Opened by mikekucera about 8 years ago - 2 comments

#71 - labels not aligned with ellipses/rectangles after unchecking scale font by cluster

Issue - State: closed - Opened by veroniquevoisin about 8 years ago - 2 comments
Labels: bug

#70 - Annotate individual cluster in network

Issue - State: closed - Opened by risserlin about 8 years ago - 9 comments
Labels: enhancement

#69 - Add option to create annotation to auto annotate command

Issue - State: closed - Opened by risserlin over 8 years ago - 6 comments
Labels: enhancement

#68 - Add Autoannotate commands

Issue - State: closed - Opened by risserlin over 8 years ago - 9 comments
Labels: enhancement

#67 - open previously saved session and collapse all without selecting anything issues

Issue - State: open - Opened by risserlin over 8 years ago - 2 comments
Labels: bug

#66 - AA freezes with collapsed network

Issue - State: open - Opened by risserlin over 8 years ago
Labels: bug, cytoscape-bug

#65 - Create summary network missing single nodes

Issue - State: closed - Opened by risserlin over 8 years ago
Labels: bug

#64 - Create summary network: add bypass for node size

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: enhancement

#63 - apply "generate summary network" to just selected clusters

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: enhancement

#62 - Very small network cannot be clustered

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#61 - Checkboxes in "collapsed" column are misleading, looks like you can click them

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#60 - changing label options in "Label Options..." should prompt to update labels

Issue - State: closed - Opened by risserlin over 8 years ago
Labels: enhancement

#59 - create subnetwork from AA looses all annotations

Issue - State: closed - Opened by risserlin over 8 years ago - 1 comment
Labels: bug

#57 - NPE with c.elegans

Issue - State: closed - Opened by mikekucera over 8 years ago - 1 comment
Labels: bug

#56 - save autoannotated collapsed network barfs

Issue - State: open - Opened by risserlin over 8 years ago - 3 comments
Labels: cytoscape-bug

#55 - Create new network to emulate collapsed notes

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug, enhancement

#54 - get error sometimes after collapsing annotations and try to redo layout

Issue - State: open - Opened by risserlin over 8 years ago - 1 comment
Labels: cytoscape-bug

#53 - Instead of labels annotate groups with wordclouds

Issue - State: open - Opened by risserlin over 8 years ago
Labels: enhancement

#52 - create subnetwork from AA collapsed network adds all nodes as well as groups

Issue - State: open - Opened by risserlin over 8 years ago - 3 comments
Labels: cytoscape-bug

#51 - trying to save collapsed annotated network throws error

Issue - State: closed - Opened by risserlin over 8 years ago - 3 comments
Labels: cytoscape-bug

#50 - Data reproducibility issue

Issue - State: closed - Opened by risserlin over 8 years ago - 3 comments
Labels: enhancement

#49 - changing network doesn't refresh AA table

Issue - State: closed - Opened by risserlin over 8 years ago - 4 comments
Labels: bug

#48 - Modify multiple annotations together

Issue - State: closed - Opened by dhollan9 over 8 years ago - 1 comment
Labels: enhancement

#47 - Hide annotation if all nodes are hidden

Issue - State: closed - Opened by risserlin over 8 years ago - 1 comment
Labels: enhancement

#46 - Redraw Annotations should only effect the current network view.

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#45 - Number of clusters label in main panel

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: enhancement

#44 - Set minimum cluster size when creating an annotation set.

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: enhancement

#43 - collapse all get node labels correct but collapsing an individual node gets it wrong

Issue - State: closed - Opened by risserlin over 8 years ago - 1 comment
Labels: bug

#42 - Fuzzy c-means doesn't work.

Issue - State: closed - Opened by mikekucera over 8 years ago - 2 comments
Labels: bug

#41 - Annotation Set Menu: disable menu items when (none) is selected

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#40 - Merge clusters: new cluster should be selected in the table

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#39 - Modify the shape of a subset of annotations

Issue - State: open - Opened by risserlin over 8 years ago - 1 comment
Labels: enhancement

#38 - try to annotate a network whose similarities were created with overlap coef = 1 AA doesn't word

Issue - State: closed - Opened by risserlin over 8 years ago - 3 comments
Labels: bug, clusterMaker2

#37 - create cluster (right click context menu) issue

Issue - State: closed - Opened by risserlin over 8 years ago
Labels: bug

#36 - Make font size vs font scale more clear

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#35 - When manually creating a cluster it should be selected in the table

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: bug

#34 - Assess viability of algorithm used by LabelMaker

Issue - State: closed - Opened by mikekucera over 8 years ago - 1 comment
Labels: enhancement

#33 - Move max words to settings panel

Issue - State: closed - Opened by mikekucera over 8 years ago
Labels: enhancement

#32 - Ability to set the number of words for the annotations

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#31 - Support multiple network views

Issue - State: closed - Opened by mikekucera almost 9 years ago - 2 comments
Labels: enhancement

#30 - add number to font size slider

Issue - State: closed - Opened by risserlin almost 9 years ago
Labels: enhancement

#29 - Handle hidden nodes in annotations

Issue - State: closed - Opened by risserlin almost 9 years ago - 3 comments
Labels: enhancement

#28 - Add colour chooser for annotation circles

Issue - State: closed - Opened by risserlin almost 9 years ago
Labels: enhancement

#27 - Collapse All performance

Issue - State: closed - Opened by mikekucera almost 9 years ago - 4 comments
Labels: bug

#26 - Collapsing does not work well when clusters overlap

Issue - State: open - Opened by mikekucera almost 9 years ago
Labels: enhancement

#25 - AnnotationSet dropdown has unpredictable order

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: bug

#24 - JUnits

Issue - State: closed - Opened by mikekucera almost 9 years ago - 1 comment
Labels: enhancement

#23 - tried to annotate merged networks and got error

Issue - State: closed - Opened by risserlin almost 9 years ago - 3 comments
Labels: bug

#22 - Add Icons to Tabs

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#21 - Add MANIFEST dependency on WordCloud

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#20 - Add About dialog.

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#19 - Add hyperlink to download clusterMaker2.

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#18 - Confusing icon in AA interface

Issue - State: closed - Opened by risserlin almost 9 years ago - 4 comments
Labels: enhancement

#17 - After selecting Collapse All change Label VS to be "name"

Issue - State: closed - Opened by risserlin almost 9 years ago - 7 comments
Labels: bug

#16 - Need about box

Issue - State: closed - Opened by risserlin almost 9 years ago - 1 comment
Labels: enhancement

#15 - Automatically redraw annotations on session reload.

Issue - State: closed - Opened by risserlin almost 9 years ago - 5 comments
Labels: enhancement

#14 - Implement UNDO

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement, wontfix

#13 - AnnotationSet combo redraws when item hasn't changed

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: bug

#12 - right click on AA table doesn't work on windows

Issue - State: closed - Opened by risserlin almost 9 years ago
Labels: bug

#10 - No way to run clustering without edge attribute

Issue - State: closed - Opened by risserlin almost 9 years ago - 3 comments
Labels: bug

#9 - clustering algorithm used for auto annotate doesn't ignore hidden nodes

Issue - State: closed - Opened by risserlin almost 9 years ago - 1 comment
Labels: enhancement

#8 - Add "recalculate" button

Issue - State: closed - Opened by risserlin almost 9 years ago
Labels: enhancement

#7 - Moving annotated cluster around - cytoscape freezes, no recovery

Issue - State: closed - Opened by risserlin almost 9 years ago - 12 comments
Labels: bug

#6 - include cluster size = 1

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#5 - Default node aggregation settings for EnrichmentMap

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#4 - Ability to add individual nodes to a cluster

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement, wontfix

#3 - Better user control of fonts

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: enhancement

#2 - Cluster must be expanded every time the session is saved.

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: bug

#1 - Annotations must be erased when a session is loaded

Issue - State: closed - Opened by mikekucera almost 9 years ago
Labels: bug