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@bhavyaac bhavyaac released this 02 Aug 21:51
· 94 commits to master since this release
v1.3
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Updated clusters app with enhancements to user experience and a new analysis tab.
Featuring a heatmap clustering plot, improved gene validation (including annotation genes), and quicker loading time.

Updated GRN app with enhancements to user experience and a new analysis tab.
Featuring TF specificity tab, improved interpretability for plots.

Full list of changes to Clusters app:

General

  • Displayed all genes in the annotation as choices for text box input, implemented improved gene input validation to differentiate between genes in the annotation with no data vs. genes not found in the annotation
  • Significantly reduced initial loading time, due to implementation of a server-side selectizeInput() for processing the large number of gene inputs
  • Allowed gene lists as .txt files to be uploaded to the app (full documentation available in the wiki)

Expression table tab

  • Conditionally formatted expression cells according to their value (darker orange for expression values closer to 1, lighter for those closer to 0) for quicker comparison

Cell types clustered by expression tab (NEW)

  • Displayed a heatmap hierarchically clustering input genes and cell types together by their mean expression within clusters
  • Implemented checkbox selection of broad cell types in the sidebar

Full list of changes to GRN app:

General

  • Added TF activity and specificity tab

Plots & Plot functionalities

Heatmap Tab
  • Adjusted size of plot and angle of cluster labels for better interpretability
Time-series Tab
  • Added time-series of cell-type proportion per brain region

TF Activity and Specificity Tab (NEW)

  • Visualise TF specficity by TF or by Cluster
  • By TF sub-tab: bar-plot of mean activity of selected TFs in each cluster in currently viewed data-set
  • By Cluster sub-tab: scatter plot of activity of each active TF in the selected cluster (y-axis) vs in all other clusters (x-axis), table of top specific TFs in cluster ranked by fold change
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