GMOD jbrowse-plugin-gdc issues

GMOD / jbrowse-plugin-gdc

JBrowse 2 plugin for integrating with GDC resources

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issues

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Applying filters should refresh the layout

#75 cmdcolin opened 11 months ago
1
Refactors for linting and typescripting

#74 cmdcolin closed 11 months ago
0
Possible ideas: modularize out MAF and SegmentCNV adapters

#73 cmdcolin opened 11 months ago
0
Demo config file http 404

#72 SamCT closed 11 months ago
3
Consider moving data import workflow to the add track dropdown

#71 carolinebridge opened 2 years ago
0
Add `<div>` wrappers to Tooltip elements to fix missing tooltip seen when fix running in MUI5

#70 cmdcolin closed 2 years ago
1
Use updated internet account base model

#69 garrettjstevens closed 2 years ago
1
Use new plugin template to update build system

#68 garrettjstevens closed 11 months ago
2
adding adapter for splice junction data

#67 carolinebridge closed 2 years ago
0
Verify extent of filesizes for remote fetching

#66 carolinebridge opened 3 years ago
0
Add automated testing for remote files from the GDC

#65 carolinebridge opened 3 years ago
0
Colour Feature Enhancements

#64 carolinebridge opened 3 years ago
1
update the seg adapter to work with tsv encoded files and 1.5.0 changes

#63 carolinebridge closed 3 years ago
0
adds new adapter to handle Methylation Beta Value files from the gdc

#62 carolinebridge closed 3 years ago
0
fix operand to capture features outside the queried boundary

#61 carolinebridge closed 3 years ago
0
fix query for true iscancergenecensus and fixes colouration on filter

#60 carolinebridge closed 3 years ago
0
Apparent conflict between GDC 'explore' tracks and their filters

#59 carolinebridge opened 3 years ago
1
Jexl function for colouring genes doesn't seem to be applying

#58 carolinebridge closed 3 years ago
0
Genes are truncated after zooming in

#57 carolinebridge closed 3 years ago
1
[isoform-expression-quantification-adapter] adds adapter for isoform expression quant files from gdc

#56 carolinebridge closed 3 years ago
0
fix plugin-replace message on compilation

#55 carolinebridge closed 2 years ago
0
Connect GDC resources with core authentication

#54 carolinebridge closed 3 years ago
0
Ensure remaining data types derived from the GDC can be processed and displayed

#53 carolinebridge closed 3 years ago
0
[604-refactor] changing how gdc plugin handles authenticated resources based on auth work in core

#52 carolinebridge closed 3 years ago
1
[maf-implementation] adding maf adapter

#51 carolinebridge closed 3 years ago
0
[import-panel-refactor] refactor the import panel to permit adding new datatypes later

#50 carolinebridge closed 3 years ago
0
adding explicitIdentifier to GDCAdapter

#49 carolinebridge closed 3 years ago
5
add or implement permanent resolution to CORS rejection when querying gdc api without a proxy

#48 carolinebridge closed 3 years ago
0
[seg-adapter-update] enforces refnames grabbed from the file rather than static values

#47 carolinebridge closed 3 years ago
0
[test-updates] adds missing tests, updates modules needed to function

#46 carolinebridge closed 3 years ago
0
update onDrop function in the import panel to be able to grow with new file adapters being added

#45 carolinebridge closed 3 years ago
1
Add adapter and enforce visualization for Splice Junction Quantification

#44 carolinebridge opened 3 years ago
0
Add adapter and enforce related visualization for Isoform Expression Quantification

#43 carolinebridge closed 3 years ago
0
Investigate VCF Simple Nucleotide Variation Raw Simple Somatic Mutation not displaying features on its track

#42 carolinebridge closed 3 years ago
1
Update SEG adapter such that the ref name is adopted from the file are not hardcoded to numbers

#41 carolinebridge closed 3 years ago
0
import explore session via uri

#40 carolinebridge closed 3 years ago
0
auth ui adjustments and cleanup

#39 carolinebridge closed 3 years ago
0
[file-category-handling] adds structure for data category handling, seg and bam working

#38 carolinebridge closed 3 years ago
0
[gdc-dialogue-login] adds dialogue login to GDC data import panel

#37 carolinebridge closed 3 years ago
0
[gdc-login] adds interface for supplying a login token for gdc authentication

#36 carolinebridge closed 3 years ago
0
Increase height on segmentCNV tracks to fix schema validation errors

#35 cmdcolin closed 3 years ago
0
jbrowse2 updates after 1.3.0 break segment cnv adapter

#34 carolinebridge closed 3 years ago
0
design and implement vcf adapter

#33 carolinebridge closed 3 years ago
2
process gdc data that is downloaded as a .gz

#32 carolinebridge closed 3 years ago
8
mock login UI as a dialogue in the Add GDC Data interface as alternative to separate widget

#31 carolinebridge closed 3 years ago
1
[gene-display-adjustments] jexl function update; adding features necessary for rendering with svg

#30 carolinebridge closed 3 years ago
1
[mutations-crash] only allow a feature to be selectable if 'feature' is defined

#29 carolinebridge closed 3 years ago
0
console errors when scrolling through tracks

#28 carolinebridge closed 2 years ago
2
switching between track type should not clear filters chosen

#27 carolinebridge closed 2 years ago
0
fix current tests, implement new ones, and establish CI

#26 carolinebridge closed 3 years ago
0