Major Version Update- BTEP Presentations #121
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…plot chart key; now the reset button works as expected, but the chart still resets its zoom if anything such as selection or slider changing etc. modifies the selected region. If I pursue this as users probably want, it would require the original idea of toggling the plotly box selection between a zoom, i.e. manually setting it, and the actual histogram region selection functionality which is already implemented
…ion of positive region of the histogram(s) or the x axis zoom
…lumn for filtering is changed
…PU when Squidpy is selected since it commandeers threads; in future we'll need to limit just the significance calculations to a single thread if Squidpy is selected
…aframes in Streamlit, to replace previous image filters such as in the multiaxial gater and probably in the plotter-based pages such as the scatter plotter and the draft radial profiles page
Removing Neighborhood Profiles checkpointing
…hood_profiles import NeighborhoodProfiles, UMAPDensityProcessing' in nidap_dashboard_lib.py is slow
…y... so it seems that umap is what makes anything in nidap_dashboard_lib.py and basic_phenotyper_lib.py slow
…y... so it seems that umap is what makes anything in nidap_dashboard_lib.py and basic_phenotyper_lib.py slow
… still doesn't pop up due to setting the wide layout in the main() function now
…peed of module imports and their effects on the forking testing
Check ubuntu installation + Andrew's additions
…s, though I'm a bit nervous about the consistency of the installation of 'annoy'. But the last two times it worked. This adds Python-based installation of packages after environment.yml/startup.sh have been used to set up the environments.
Update live installation of packages so that both unpublished workspaces and published dashboards work
…aller than the dataframe size; if so, then essentially just return the whole dataframe
… interest in case they have changed and haven't updated through the app
…SIT replace them with underscores; until now, just some of them did, like those in single_roi_outlines_on_whole_slides
Three bug fixes
…ch cleaner way, basically undoing most of the changes from the last commit; compare to the commit before that
…ompare the previous one to is 64bac4e
…, in order to not change many things at once, then make sure we respect that when getting the correct paths for the ROIs
djsmith17
changed the title
djsmith17
changed the title
andrew-weisman
approved these changes
Oct 15, 2024
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Variety of edits from Summer 2024 ahead of a 4 part presentation series at NCI Bioinformatics Training and Education Program