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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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Issue Creating Plotly Plot for Specific Dataset and Parameters on Tablet #815

Closed samgevine closed 3 months ago

samgevine commented 3 months ago

Having issues creating a plotly plot for a specific dataset and parameters using iPad. See attached screenshots.

IMG_1254 IMG_1253 IMG_1252 IMG_1251

DanLesperance commented 3 months ago

@samgevine Can you try to create the plot with X and Y being different parameters rather than both expression and let me know if this works

adkinsrs commented 3 months ago

At the very least we should have a validation check to ensure X and Y are different.

samgevine commented 3 months ago

For whatever reason the only X and Y parameter options I have are identical. Potentially a problem with the dataset?

adkinsrs commented 3 months ago

@samgevine When a dataset is loaded, all categorical and continuous metadata is retrieved from the dataset. If "expression" was the only column you saw, it could be that the observation (sample or cell) metadata is empty. Can you inform us what dataset you selected?

samgevine commented 3 months ago

The dataset was “ P25-27, spiral ganglion neurons, scRNA-seq, Goodrich lab (normalized)”

beamilon commented 3 months ago

It's a problem with the dataset not with gEAR. Some info is missing from the raw data to be able to analyze it. It is better to use the one that is not normalize.

DanLesperance commented 3 months ago

@adkinsrs perhaps we create a new ticket with the validation check you proposed earlier along with a validation check to ensure there's more than one option available for X and Y, if not we provide an error saying that the dataset does not have enough categories to plot

adkinsrs commented 3 months ago

@DanLesperance done, and will close this in favor of #819