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Pull requests: PavlidisLab/Gemma

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Pull requests list

Mark ExperimentalFactor as auto-generated
#1499 opened Aug 26, 2025 by arteymix • Draft
1
Bump on-headers and compression in /gemma-web/src/main/webapp dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code minor
#1481 opened Aug 5, 2025 by dependabot bot Loading…
Bump org.apache.commons:commons-lang3 from 3.14.0 to 3.18.0 dependencies Pull requests that update a dependency file java Pull requests that update java code minor
#1480 opened Aug 5, 2025 by dependabot bot Loading…
Bump http-proxy-middleware from 2.0.7 to 2.0.9 in /gemma-web/src/main/webapp dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1479 opened Aug 5, 2025 by dependabot bot Loading…
Bump commons-fileupload:commons-fileupload from 1.5 to 1.6.0 dependencies Pull requests that update a dependency file java Pull requests that update java code minor
#1478 opened Aug 5, 2025 by dependabot bot Loading…
Bump webpack-dev-server from 5.1.0 to 5.2.1 in /gemma-web/src/main/webapp dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code minor
#1476 opened Aug 5, 2025 by dependabot bot Loading…
Bump jquery from 2.2.4 to 3.7.1 in /gemma-web/src/main/webapp dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1475 opened Aug 5, 2025 by dependabot bot Loading…
Single-cell batch correction
#1474 opened Aug 3, 2025 by arteymix • Draft
5 tasks
1
1
Add other accessions for ExpressionExperiment, BioAssay and BioMaterial
#1471 opened Aug 3, 2025 by arteymix • Draft 1.33.0
1
Improve filtering of genes for single-cell datasets
#1407 opened Jun 3, 2025 by arteymix Loading… 1.32.3
1
@arteymix
1
Cell-level measurements low priority single cell Issues related to single-cell data support
#1375 opened Apr 19, 2025 by arteymix • Draft
4 of 9 tasks
1.33.0
2
@arteymix
2
Add support for loading simple cell type annotations from GEO supplem…
#1311 opened Dec 20, 2024 by arteymix • Draft
Add a utility to create a SSH tunnel for the database
#1237 opened Sep 29, 2024 by arteymix Loading…
@arteymix
2
Replace usages of SimpleFormController with annotation-based endpoints
#1173 opened Jul 2, 2024 by arteymix • Draft
1
Multiple databases lock
#1165 opened Jun 26, 2024 by arteymix • Draft
1
Add a second baseline group and a migration to port existing result sets
#1139 opened Jun 6, 2024 by arteymix • Draft
3 tasks
1
1
Generate wiki markup for updating curator documentation
#1018 opened Feb 2, 2024 by arteymix • Draft
1
Add a command line tool for linting ACLs
#997 opened Jan 22, 2024 by arteymix Loading…
2 of 7 tasks
1
Improve how directories are specfied in Jenkinsfile infrastructure Issues that don't require code changes
#955 opened Nov 25, 2023 by arteymix • Draft
2 tasks
@arteymix
2
Improve cacheability of filters database Issues that involve the database performance
#871 opened Sep 25, 2023 by arteymix • Draft
1 task
2
@arteymix
9
Eliminate offset/limit parameters and improve the code for retrieving…
#859 opened Sep 20, 2023 by arteymix • Draft
2
1
Add support for secured fields
#810 opened Aug 27, 2023 by arteymix Loading…
Introduce the Specification<T> interface for find() and findOrCreate() cleanup Code reorganization and changes that should not impact functionality enhancement Enhance the code or user experience
#809 opened Aug 25, 2023 by arteymix • Draft
2
allow backfilling of counts and rpkm without triggering preprocessing
#771 opened Jul 17, 2023 by ppavlidis Loading…
2 of 3 tasks
@arteymix
8
Add support for subqueries for the Criteria-based filtering service
#715 opened Jun 5, 2023 by arteymix • Draft
1
@arteymix
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