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fungenomics
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braindex
A web portal for exploring scRNAseq data in the developing brain, including our in-house atlas of the E10-P6 forebrain and brainstem
http://cc-shiny-01.functionalgenomics.ca/braindex/clusters/
GNU General Public License v3.0
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Height of dendrogram bubble plot dependent on number of genes in file
#68
bhavyaac
opened
5 months ago
0
Heatmap not being produced
#67
bhavyaac
opened
5 months ago
0
Switch expression table to display Pct1 (detection rate in cluster)
#66
bhavyaac
closed
1 year ago
1
Fix google analytics.
#65
HebertS
closed
2 years ago
0
Add google analytics to the braindex/clusters app.
#64
HebertS
closed
2 years ago
0
Solve bookmarking bug: store file input genes in variable with text input genes
#63
bhavyaac
opened
2 years ago
0
Allow individual gene selection in dimensionality reduction tabs
#62
bhavyaac
opened
2 years ago
0
Add extended timepoints to GRN app + additional functionality
#61
sjessa
closed
2 years ago
0
Clusters app v1.4.1 update
#60
bhavyaac
closed
1 year ago
0
Remove sidebar input options on the landing page
#59
bhavyaac
closed
1 year ago
0
Add download functionality for marker tables
#58
bhavyaac
opened
2 years ago
0
Show cluster information in table without requiring gene input
#57
bhavyaac
closed
2 years ago
0
Clusters app v1.4 update
#56
bhavyaac
closed
2 years ago
0
Export contents unrelated to Shiny from server.R to functions.R
#55
bhavyaac
closed
2 years ago
0
(accidental issue, please delete)
#54
bhavyaac
closed
3 years ago
0
Subset & visualize single cells based on gene expression thresholds
#53
bhavyaac
opened
3 years ago
0
Enhancements to v1.3 clusters app
#52
bhavyaac
closed
3 years ago
0
Improve input validation to detect typos & synonymous genes
#51
bhavyaac
opened
3 years ago
0
Add new column label bars to heatmap
#50
bhavyaac
closed
2 years ago
2
Implement nested cell type selection in heatmap tab
#49
bhavyaac
opened
3 years ago
1
Allow user to select between input genes in ranked clusters tab
#48
bhavyaac
closed
3 years ago
0
Add plot download functionality to ranked clusters & heatmap tabs
#47
bhavyaac
closed
3 years ago
0
Alter heatmap & histogram label positioning for increased readability
#46
bhavyaac
closed
3 years ago
1
Handle all-zero (?) expression rescaling in heatmap
#45
bhavyaac
opened
3 years ago
1
Update GRN app
#44
sjessa
closed
3 years ago
0
Clusters app v1.3 update
#43
bhavyaac
closed
3 years ago
0
Allow .txt files for gene list upload
#42
bhavyaac
closed
3 years ago
0
Update GRN app with per-timepoint analysis, TF validation, aesthetic changes
#41
sjessa
closed
3 years ago
0
Deal with excessive table width: horizontal scroll, freeze column(s), move search box
#40
bhavyaac
opened
3 years ago
2
Adjust alignment of the gene labels with the dendrogram bubble plots
#39
bhavyaac
opened
3 years ago
0
Display buttons above the timecourse plot to "scroll" between gene inputs
#38
bhavyaac
closed
3 years ago
3
Extract input validation into a function (currently duplicated code)
#37
bhavyaac
closed
3 years ago
0
Updates to GRN app
#36
sjessa
closed
3 years ago
0
For 2D gene plotting, fix the case when a gene has 0 expression in all samples in one region
#35
sjessa
opened
3 years ago
4
Add gene specificity score analysis
#34
sjessa
closed
1 year ago
1
Clusters app v1.2 update
#33
bhavyaac
closed
3 years ago
0
Change table text to white when background colour is dark
#32
bhavyaac
closed
3 years ago
2
Add landing page and tour
#31
sjessa
closed
2 years ago
5
Add Google Analytics for tracking accession stats
#30
sjessa
closed
1 year ago
2
Implement interactivity for heatmaps
#29
sjessa
opened
3 years ago
0
Add ability to bookmark URL to capture current state of the app (using a button)
#28
sjessa
closed
3 years ago
2
Add citation, methods, contributors, code info
#27
sjessa
closed
2 years ago
1
Make all TFs in annotation available for searching
#26
sjessa
closed
3 years ago
0
Add ability to click on a cluster in dim red & pull up top active/specific TFs
#25
sjessa
closed
3 years ago
0
Add searchable analyses of network/regulon changes over timecourse
#24
sjessa
opened
3 years ago
0
Allow identification of active/specific TFs for a given cluster
#23
sjessa
closed
3 years ago
0
Add quantification of user input gene lists within TF regulons
#22
sjessa
opened
3 years ago
0
Add ability to cluster cell types based on mean expression of input genes
#21
sjessa
closed
3 years ago
7
Add visualization(s) of clusters ranked by mean expression of input gene
#20
sjessa
closed
3 years ago
7
Show number of cells expressing the gene in timecourse tooltip
#19
bhavyaac
closed
3 years ago
3
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