Ecosyste.ms: Issues

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

GitHub / dondi/GRNsight issues and pull requests

#1116 - Fix script to correctly update the genes

Pull Request - State: open - Opened by ntran18 24 days ago

#1115 - Scheduling Fall group meetings

Issue - State: closed - Opened by kdahlquist about 2 months ago - 4 comments
Labels: priority 0, logistics

#1114 - Fixing PR #1112 to Restrict D-pad

Pull Request - State: closed - Opened by ceciliazaragoza 6 months ago

#1113 - #1106 Writing Scripts for Updating Database and Refactor Code

Pull Request - State: closed - Opened by ntran18 6 months ago

#1111 - #1106 fixing off-by-one column issue.

Pull Request - State: closed - Opened by ntran18 6 months ago

#1109 - Issue #1081 Node Coloring Top Menu Availability of Options

Pull Request - State: closed - Opened by ceciliazaragoza 6 months ago - 2 comments

#1108 - When exporting to Excel, the option to export the "network_weights" sheet should be available at all times

Issue - State: open - Opened by kdahlquist 6 months ago
Labels: bug, functionality, priority 0.5

#1107 - When exporting to Excel, default value for alpha on the optimization_parameters sheet should be 0.02, not 0.002

Issue - State: open - Opened by kdahlquist 6 months ago
Labels: feature request, functionality, priority 0.5

#1106 - ERT1 not in network database

Issue - State: open - Opened by kdahlquist 6 months ago - 22 comments
Labels: bug, priority 0, for next release, database

#1105 - Update network and protein protein database

Pull Request - State: closed - Opened by ntran18 7 months ago - 1 comment

#1104 - Update People page with UGRS in-person photo

Issue - State: closed - Opened by dondi 7 months ago - 4 comments
Labels: web site, priority 0

#1103 - Error with import function on beta

Issue - State: closed - Opened by nchun2 7 months ago - 2 comments
Labels: bug

#1102 - Further testing opening sif files for GRNs and PPIs

Issue - State: open - Opened by kdahlquist 7 months ago
Labels: bug, functionality, priority 0.5

#1101 - Fix Export SIF

Pull Request - State: closed - Opened by ntran18 7 months ago - 1 comment

#1100 - Fix issue #1099 to stop loading demo 1 when exporting sif, graphml

Pull Request - State: closed - Opened by ntran18 7 months ago - 1 comment

#1099 - Exporting file reload demo 1

Issue - State: closed - Opened by ntran18 7 months ago - 1 comment
Labels: bug, priority 0, for next release

#1098 - Importing new files has some delays

Issue - State: open - Opened by ntran18 7 months ago
Labels: bug, priority 0.5

#1096 - Fixing the network mode for export function #1079

Pull Request - State: closed - Opened by ntran18 7 months ago

#1095 - Look into Travis user limit for free plan

Issue - State: open - Opened by dondi 8 months ago - 1 comment
Labels: priority 0

#1093 - D-pad, zoom slider, and cursor drag do not move graph after export to SVG

Issue - State: open - Opened by ceciliazaragoza 8 months ago - 3 comments
Labels: bug, priority 1

#1091 - Importing empty network with network tab of Excel file crashes the website

Issue - State: closed - Opened by ntran18 8 months ago - 2 comments
Labels: bug, priority 0, for next release

#1090 - make LMU URS poster so it can be printed before the March 15 symposium

Issue - State: closed - Opened by kdahlquist 8 months ago - 36 comments
Labels: documentation, priority 0, logistics

#1089 - Update network database with new data from Intermine/SGD

Issue - State: open - Opened by kdahlquist 8 months ago - 9 comments
Labels: priority 0, database

#1088 - Setup ssh keys to facilitate GRNsight deployments

Issue - State: open - Opened by dondi 8 months ago - 1 comment
Labels: priority 0, logistics

#1086 - Style Updates from Issue #1002

Pull Request - State: closed - Opened by ceciliazaragoza 9 months ago - 1 comment

#1085 - Fixing issue #1072.

Pull Request - State: open - Opened by ntran18 9 months ago - 3 comments

#1084 - Test export/import cycle for GRNsight-->GRNsight/GRNmap

Issue - State: open - Opened by kdahlquist 9 months ago
Labels: functionality, testing, priority 0

#1083 - Checking restrict graph to viewport makes the D-pad and zoom slider on the viewport disappear

Issue - State: closed - Opened by kdahlquist 9 months ago - 12 comments
Labels: bug, functionality, priority 0, review requested

#1082 - Selecting a particular sequence of view options causes graph to shrink to the size of one node

Issue - State: open - Opened by kdahlquist 9 months ago - 2 comments
Labels: bug, priority 0.5, graph layout

#1081 - node coloring top menu availability of options

Issue - State: closed - Opened by kdahlquist 9 months ago - 1 comment
Labels: bug, priority 0, review requested, node coloring

#1080 - node coloring glitch when loading network from database

Issue - State: open - Opened by kdahlquist 9 months ago - 5 comments
Labels: bug, priority 0, node coloring

#1079 - Problems opening .sif and .graphml files

Issue - State: closed - Opened by kdahlquist 9 months ago - 13 comments
Labels: bug, priority 0.5, for next release

#1078 - Onboarding for Cecilia & A’Kaia

Issue - State: closed - Opened by dondi 9 months ago - 22 comments
Labels: priority 0

#1077 - Release checklist for v7.1

Issue - State: open - Opened by dondi 10 months ago - 12 comments
Labels: priority 0

#1076 - Meeting time for Spring 2024 semester

Issue - State: closed - Opened by kdahlquist 10 months ago - 9 comments
Labels: priority 0, logistics

#1075 - Adding PPI demo #1065

Pull Request - State: closed - Opened by ntran18 10 months ago

#1074 - When GRN loaded from file with no expression data, nodes are colored gray instead of white

Issue - State: open - Opened by kdahlquist 10 months ago - 4 comments
Labels: bug, priority 0, node coloring

#1073 - Adding changes for #1072 issue

Pull Request - State: closed - Opened by ntran18 10 months ago

#1072 - Review PPI database-loading script

Issue - State: closed - Opened by dondi 11 months ago - 4 comments
Labels: priority 0, review requested, database

#1071 - Disclaimer for lack of node-coloring PPI support

Issue - State: open - Opened by dondi 11 months ago - 2 comments
Labels: priority 0, node coloring, network

#1070 - Export features should factor Network Mode more deeply

Issue - State: open - Opened by dondi 11 months ago
Labels: priority 0.5, network

#1069 - Network Mode needs to adjust more aspects of a current network

Issue - State: open - Opened by dondi 11 months ago - 1 comment
Labels: priority 0.5, network

#1068 - Node coloring does not support protein-level expression data

Issue - State: open - Opened by dondi 11 months ago
Labels: priority 1, node coloring, network

#1067 - Activate Network mode at all times

Issue - State: open - Opened by dondi 11 months ago - 2 comments
Labels: priority 1, network

#1066 - Adjust Open File for varying network modes (GRN/PPI)

Issue - State: open - Opened by dondi 11 months ago
Labels: priority 0.5, network

#1065 - Add PPI demo

Issue - State: closed - Opened by dondi 11 months ago - 5 comments
Labels: priority 0, review requested, network

#1064 - Fixing search symbol #1050

Pull Request - State: closed - Opened by ntran18 11 months ago

#1063 - Making the search button bigger #1050

Pull Request - State: closed - Opened by ntran18 11 months ago

#1062 - Update local setups to include grnsettings

Issue - State: closed - Opened by dondi 12 months ago - 4 comments
Labels: functionality, priority 0, database

#1061 - Deeper integration of distinct network types

Issue - State: closed - Opened by dondi 12 months ago - 4 comments
Labels: functionality, priority 0

#1060 - New tests are needed for protein-to-protein-specific networks

Issue - State: open - Opened by dondi 12 months ago
Labels: testing

#1059 - Export to SVG modifies the graph itself

Issue - State: open - Opened by dondi 12 months ago
Labels: bug, priority 1

#1058 - Modify cell A1 name #1054

Pull Request - State: closed - Opened by ntran18 12 months ago - 1 comment

#1057 - Modify the name of cell A1 of exporting Excel workbook #1054

Pull Request - State: closed - Opened by ntran18 12 months ago - 1 comment

#1056 - Fixing other modals in #1029 issue

Pull Request - State: closed - Opened by ntran18 12 months ago

#1055 - Node Coloring Coordination between top menu and side panel

Issue - State: open - Opened by ntran18 12 months ago - 3 comments
Labels: feature request, priority 1, node coloring

#1054 - Modify the name of cell A1 of exporting Excel workbook

Issue - State: closed - Opened by ntran18 12 months ago - 11 comments
Labels: feature request, priority 0, network

#1053 - Missing expression data for a gene in database causes UI problems

Issue - State: open - Opened by ntran18 12 months ago
Labels: bug, priority 1, database

#1052 - Fixing bug #1029

Pull Request - State: closed - Opened by ntran18 12 months ago - 1 comment

#1051 - Maika 1033

Pull Request - State: closed - Opened by ntran18 about 1 year ago - 3 comments

#1050 - Search (magnifying glass) button is too small in Load from Database modal

Issue - State: closed - Opened by kdahlquist about 1 year ago - 3 comments
Labels: bug, priority 0, review requested

#1049 - Fix bug #1034

Pull Request - State: closed - Opened by ntran18 about 1 year ago

#1048 - Fixing bug #1033

Pull Request - State: closed - Opened by ntran18 about 1 year ago - 1 comment

#1047 - Join LMUCS Slack

Issue - State: closed - Opened by dondi about 1 year ago - 2 comments
Labels: priority 0, review requested

#1046 - Get GRNsight running locally on your machine

Issue - State: closed - Opened by dondi about 1 year ago - 18 comments
Labels: priority 0, logistics

#1045 - Fix bug #1016

Pull Request - State: closed - Opened by ntran18 about 1 year ago - 1 comment

#1044 - Look into Coveralls integration

Issue - State: open - Opened by dondi about 1 year ago - 2 comments
Labels: bug

#1043 - Follow the new student onboarding checklist

Issue - State: closed - Opened by dondi about 1 year ago - 1 comment
Labels: priority 0, review requested

#1042 - Scheduling GRNsight meeting for Fall 2023

Issue - State: closed - Opened by kdahlquist about 1 year ago - 3 comments
Labels: priority 0, logistics

#1041 - Check out this solution to keeping library versions straight in R

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

#1040 - Fixed glyphicon rendering

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

#1039 - v7.0.0 Protein-Protein Physical Interactions

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

#1038 - #1016

Pull Request - State: closed - Opened by ntran18 over 1 year ago

#1037 - #992 Adding a grnsettings table to database

Pull Request - State: closed - Opened by ahmad00m over 1 year ago - 2 comments

#1036 - #1016

Pull Request - State: closed - Opened by ntran18 over 1 year ago

#1035 - Change order of Yeastmine versions in generate GRN modal

Issue - State: closed - Opened by kdahlquist over 1 year ago - 2 comments
Labels: priority 0, enhancement

#1034 - Restrict Graph to Viewport Bug

Issue - State: closed - Opened by Sarronnn over 1 year ago - 7 comments
Labels: bug, functionality, priority 0, review requested

#1033 - Can only change dataset from bottom option, not top

Issue - State: closed - Opened by Sarronnn over 1 year ago - 4 comments
Labels: bug, functionality, priority 0, review requested

#1032 - v6.0.7

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

#1031 - Release v6.0.7 to production

Issue - State: closed - Opened by dondi over 1 year ago - 7 comments
Labels: priority 0, for next release

#1030 - Change names for environment variables pertaining to the database

Issue - State: open - Opened by Onariaginosa over 1 year ago
Labels: priority 1, refactor, database

#1029 - Modal closes unexpectedly when click and drag the modal window with the mouse

Issue - State: closed - Opened by kdahlquist over 1 year ago - 10 comments
Labels: bug, priority 0, review requested

#1028 - protein-protein interaction UI refinements

Issue - State: closed - Opened by kdahlquist over 1 year ago - 8 comments
Labels: feature request, priority 0

#1027 - GRNsight Website certificate is expired

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

#1026 - Pg version change

Pull Request - State: closed - Opened by ahmad00m over 1 year ago - 2 comments

#1025 - #1022 #1023 #1024 completed. #1020 WIP

Pull Request - State: closed - Opened by Onariaginosa over 1 year ago
Labels: for next release

#1024 - Bug: None of the edges are displaying

Issue - State: closed - Opened by Onariaginosa over 1 year ago - 1 comment
Labels: bug, priority 0, review requested, for next release

#1023 - Edit the information in the menu bar to say GRN source

Issue - State: closed - Opened by kdahlquist over 1 year ago - 2 comments
Labels: functionality, priority 0, for next release

#1022 - Data refresh for network database

Issue - State: closed - Opened by kdahlquist over 1 year ago - 3 comments
Labels: priority 0, review requested, for next release, database

#1021 - LMU URS 2023

Issue - State: closed - Opened by kdahlquist over 1 year ago - 30 comments

#1020 - Investigate Yeastmine for information on Protein - Protein Interactions Mode

Issue - State: closed - Opened by Onariaginosa over 1 year ago - 10 comments
Labels: database

#1019 - #1018 consolidated export to excel

Pull Request - State: closed - Opened by Onariaginosa over 1 year ago
Labels: for next release

#1018 - Export to Excel isn't actually exporting an unweighted graph when selected

Issue - State: closed - Opened by Onariaginosa over 1 year ago - 3 comments
Labels: bug, review requested, for next release

#1017 - update Client Side Testing Document wiki to be compatible with multiple featureList.json files

Issue - State: closed - Opened by kdahlquist over 1 year ago - 1 comment
Labels: documentation, priority 0