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ucscXena
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XenaGoWidget
Xena Gene Set Viewer (demo: http://xenademo.berkeleybop.io/xena)
https://xenageneset.berkeleybop.io/xena/
BSD 3-Clause "New" or "Revised" License
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activity sample orders are out of sync
#691
nathandunn
closed
3 years ago
2
fixes arbitrary fail
#690
nathandunn
closed
3 years ago
0
fix testing so doesn't arbitrarily fail
#689
nathandunn
closed
3 years ago
0
remove extra normalization step
#688
nathandunn
closed
3 years ago
1
re-validate z-scores after change
#687
nathandunn
closed
3 years ago
0
fixes #685
#686
nathandunn
closed
3 years ago
0
fix gene set and gene hover label
#685
nathandunn
closed
3 years ago
0
fix gene sample order, fix pathway and gene sample color - validate a custom GMT using Default to make sure it is the same
#684
nathandunn
closed
3 years ago
12
add local raw "gene expression raw" scores for doing BPA analysis
#683
nathandunn
closed
3 years ago
0
if pathway dropdown description is long, it extends stuff too far
#682
nathandunn
closed
3 years ago
0
integrate new gene expression cohort Z-values with in cohort server
#681
nathandunn
closed
3 years ago
0
export gene TPM files to export to Jing
#679
nathandunn
closed
3 years ago
1
Fix 670
#678
nathandunn
closed
3 years ago
0
show list of pathways available when going from dev xena to geneset widget in wizard screen
#677
nathandunn
closed
3 years ago
1
hover geneset labels should have goid for default and custom gene sets when available
#676
nathandunn
closed
3 years ago
0
update pathways to use "official" GOlabel terms
#675
nathandunn
closed
3 years ago
1
default genesets should ALSO have the GO terms
#674
nathandunn
closed
3 years ago
2
Fix 668
#673
nathandunn
closed
3 years ago
0
Loader added issue#671
#672
2580ayush2580
closed
3 years ago
1
Improve UI
#671
2580ayush2580
closed
3 years ago
4
redo calculations to generate Z-Score over all sample values (TPMs) and store Z-scores
#670
nathandunn
closed
3 years ago
0
recover GO Ids for custom gene sets
#669
nathandunn
closed
3 years ago
0
add number of pathways to geneset drop-down
#668
nathandunn
closed
3 years ago
0
Fix 653
#667
nathandunn
closed
3 years ago
0
Fix 665
#666
nathandunn
closed
3 years ago
0
send only samples from sub-cohort if sub-cohort selected
#665
nathandunn
closed
3 years ago
0
test actual 5+ MB data sets
#664
nathandunn
closed
3 years ago
1
replaced the single method
#663
nathandunn
closed
3 years ago
0
analysis method should use newer workflow, ignoring calcs in client
#662
nathandunn
closed
3 years ago
0
redid for newer server-side processing route
#661
nathandunn
closed
3 years ago
0
allow changing cohorts and samples with custom gene sets
#660
nathandunn
closed
3 years ago
0
handle large (5MB plus) files
#659
nathandunn
closed
3 years ago
3
Integrate grails server
#658
nathandunn
closed
3 years ago
2
moved initial component aroiund
#657
nathandunn
closed
3 years ago
0
submit GMT via webservice to Xena app for rendering (GMT + cohort A + cohort B)
#656
nathandunn
closed
3 years ago
0
fix XenaGoWidget to work with backend and fix AnalysisService
#655
nathandunn
closed
3 years ago
1
gene diff scores are not showing up with a custom
#654
nathandunn
closed
3 years ago
1
client testing using Github Actions
#653
nathandunn
closed
3 years ago
0
mean BPA score should be mean BPA z-score (and same for sample BPA score)
#652
nathandunn
closed
3 years ago
0
validate sample vs mean scores for expression
#651
nathandunn
closed
3 years ago
4
transfer R-server to analysis-server to allow bulk upload
#650
nathandunn
closed
3 years ago
0
use label height to push viewer down for highlight offset
#649
nathandunn
closed
3 years ago
0
fixes overlap
#648
nathandunn
closed
3 years ago
0
move render methods to 'componentDidMount'? / componentDidUpdate?
#647
nathandunn
closed
3 years ago
0
Fix 645 intermediate server
#646
nathandunn
closed
3 years ago
0
handle local storage size or move to intermediate server
#645
nathandunn
closed
3 years ago
4
redo using react app from nwb
#643
nathandunn
opened
3 years ago
2
fix hover alignment
#642
nathandunn
closed
3 years ago
0
hallmark input
#641
nathandunn
closed
3 years ago
2
require manual "close" during upload piece instead of escaping . . if analysis state is false, then cancel additoin
#640
nathandunn
closed
3 years ago
0
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