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ialbert / genescape-central

Gene Ontology subgraph visualizations
MIT License
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More than one pattern term match #17

Closed sridhar0605 closed 3 months ago

sridhar0605 commented 3 months ago

Its great that user can filter the resulting tree based certain key words. Can users use more than one keyword? I think currently this is not supported.

Alternatively, if user provides a pattern on GUI or shiny, can the pattern label be added to png,pdf file as a prefix or suffix?

For example: Currently the default file that gets saved is genescape.png on the shiny app.

If pattern ligand is supplied then the output plot should be ligand_genescape.png

ialbert commented 3 months ago

the pattern is interpreted as a regular expression, so it is easy to match multiple terms, 

  word1|word2|word3

but I should make that more clear and will do so in the docs

sridhar0605 commented 3 months ago

Thanks a one line explanation in the docs would be great, I guess you can negate my output file prefix request I see how this can break things if user has more than one pattern.

ialbert commented 3 months ago

other issues with naming are that it is very common to filter by counts and by root (and I am exploring adding more filters in the future as we add more functionality). at that point it becomes onerous to embed all that information into the name.

In normal usecase the most common use is to keep filtering until I find something I want then save that and immediately rename it in a way that makes most sense to the project.

ialbert commented 3 months ago

Fixed in version 0.9.4., the main web interface has brief documentation at the bottom that describes the use of interface elements, noting that the pattern matching uses regular expressions.