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IGS / 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
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on projection page "Strongest negative contributors" are listed when there are no negative gene weights #844

Closed carlocolantuoni closed 3 months ago

adkinsrs commented 3 months ago

What conditions did you do to show a blank "strongest negative contributors" section? I've been testing a particular weighted pattern list and it appropriately shows weights under the PCA algorithm and hides them for NMF

carlocolantuoni commented 3 months ago

gotcha - even if PCA method is selected, if there are no negative weights we need to remove those " strongest negative contributors " - like here where weights are all 0 or 1: http://nemoanalytics.org/p?p=p&l=NeocortexDevoHsInVitro&c=CellCycleGenes.Seurat&algo=pca

On Thu, Aug 1, 2024 at 10:24 AM Shaun Adkins @.***> wrote:

What conditions did you do to show a blank "strongest negative contributors" section? I've been testing a particular weighted pattern list and it appropriately shows weights under the PCA algorithm and hides them for NMF

— Reply to this email directly, view it on GitHub https://github.com/IGS/gEAR/issues/844#issuecomment-2263211716, or unsubscribe https://github.com/notifications/unsubscribe-auth/AH7KC7TVMNJNMJT35PHNIWLZPJALXAVCNFSM6AAAAABLZFDB7SVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDENRTGIYTCNZRGY . You are receiving this because you authored the thread.Message ID: @.***>

-- Carlo

adkinsrs commented 3 months ago

Links to #593

adkinsrs commented 3 months ago

Fixed

carlocolantuoni commented 3 months ago

👍👍

On Thu, Aug 1, 2024 at 3:08 PM Shaun Adkins @.***> wrote:

Fixed

— Reply to this email directly, view it on GitHub https://github.com/IGS/gEAR/issues/844#issuecomment-2263777398, or unsubscribe https://github.com/notifications/unsubscribe-auth/AH7KC7XRWYWNPG6622ZVGTTZPKBUDAVCNFSM6AAAAABLZFDB7SVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDENRTG43TOMZZHA . You are receiving this because you authored the thread.Message ID: @.***>

-- Carlo