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gEAR
The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more.
https://umgear.org
GNU Affero General Public License v3.0
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Implement ProjectR
#243
adkinsrs
closed
1 year ago
84
2-ended color scale with centered plotting order for PCA projection displays
#509
carlocolantuoni
closed
8 months ago
37
Implement a queue system so running projectR is staggered and not going to crash the server:
#442
adkinsrs
closed
1 year ago
26
High resolution .png download for static tSNE/MAP scatter plots
#667
carlocolantuoni
closed
3 weeks ago
25
add new projection methods
#594
carlocolantuoni
opened
8 months ago
25
add ability to control dot size in static tSNE/MAP scatters
#618
carlocolantuoni
closed
6 months ago
23
Find marker genes in sc workbench doesn't work following update
#318
beamilon
closed
1 year ago
20
Find marker genes step returns errors on a particular dataset
#218
beamilon
closed
1 year ago
20
error drawing the plot for P1, P12, P100, mouse, scRNA-seq, utricular hair cells (Kelley)
#380
beamilon
opened
1 year ago
19
Datasets without category for multigene display generation.
#208
beamilon
closed
2 years ago
19
Multigene curations ready to go live
#197
beamilon
opened
2 years ago
19
Single-cell Workbench: Explore filtering out clusters or merging clusters
#533
adkinsrs
closed
10 months ago
17
3rd simpler (unweighted only) method of projection in addition to PCA and NMF
#487
carlocolantuoni
closed
1 year ago
17
Epiviz not working
#359
beamilon
closed
1 year ago
16
Related to #356 that was closed
#362
beamilon
opened
1 year ago
15
Marker gene visualization returns an error message
#323
beamilon
closed
1 year ago
15
add the function to select the entire row by clicking the row index (Primary analysis)
#151
songeric1107
closed
2 years ago
15
Exact match tooltip doesn't match icon on/off upon page reload
#295
JPReceveur
opened
2 years ago
14
move the legend to the bottom of UMAP
#273
songeric1107
closed
2 years ago
14
Add links to tutorials/get help button to all tool pages
#239
JPReceveur
closed
1 year ago
14
headers that can be used for comparison tool
#11
songeric1107
closed
2 years ago
14
Multigene Curator - Enable clusterbars on matrixplots
#200
beamilon
closed
2 years ago
13
Updates needed for GCID version of gEAR
#125
jorvis
opened
2 years ago
13
data
#448
gear-portal-team
closed
10 months ago
12
sign in issues
#215
beamilon
closed
1 year ago
12
Primary analysis needed for public 2 scRNAseq datasets
#201
beamilon
closed
2 years ago
12
suggestions about comparison tool on devel (from Ronna)
#150
songeric1107
closed
2 years ago
12
Create improved/hierarchical menu systems for gene carts and profiles
#31
jorvis
closed
2 years ago
12
do not list negative contributors for NMF projection or any gene cart with no negative weights
#593
carlocolantuoni
closed
8 months ago
11
Is ProjectR implemented or is it still on the work?
#518
beamilon
closed
1 year ago
11
tSNE/UMAP don't look right in the sc workbench
#386
beamilon
closed
1 year ago
11
exact match and multigene icons inactive
#366
beamilon
closed
3 months ago
11
Error message for multigene graph
#211
beamilon
closed
2 years ago
11
Create and register globally unique identifiers
#394
JPReceveur
closed
1 year ago
10
add colorblind color option for UMAP/TSNE
#324
songeric1107
opened
1 year ago
10
Making colors consistent for the Hertzano/Ament single cell datatsets
#293
beamilon
opened
2 years ago
10
modified the svg display for PTS-NIHL dataset
#17
songeric1107
closed
2 years ago
10
Rewrite "gene cart manager" (gene lists) page
#622
adkinsrs
closed
5 months ago
9
In dataset display curator for static tSNE/UMAP/PCA plots: Add ability to use any continuous variables as the X and Y coordinates
#590
carlocolantuoni
closed
8 months ago
9
Group labeling headers show up before click on clustering step, single-cell wb
#307
JPReceveur
closed
1 year ago
9
Ability to search genes by inter-organism gene aliases
#257
adkinsrs
opened
2 years ago
9
Multigene curator - Adjust volcano plot when non-expressed data is in play
#161
adkinsrs
closed
2 years ago
9
Fix false logged out display on dataset curator page
#154
adkinsrs
closed
2 years ago
9
File size limit
#506
gear-portal-team
closed
1 year ago
8
Genes detected in single gene search but not showing in the multigene view
#290
beamilon
closed
2 years ago
8
Multigene displays updated and ready to be made default
#246
beamilon
closed
1 year ago
8
Identify existing columns in gEAR metadata to which we can apply ontologies
#216
mgiglio99
opened
2 years ago
8
HeatMap labelling improvement if feasable
#199
beamilon
closed
2 years ago
8
Test volcano plot fold-change, p-value threshold options, and "group vs rest" plot option
#174
adkinsrs
closed
2 years ago
8
Error caused by not all parts of primary analysis present in a dataset
#609
JPReceveur
closed
7 months ago
7
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