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TODO_shiny_opt.md

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shiny todo optimization/performance tuning ideas:

  • UNNECESSARY: consider how to keep sashimi plot updates to one pass, preventing sample_id and gene changes from being out of sync, and triggering a partial update to the plot before both are ready.

    • get_sashimi_data() might be that step

  • UNNECESSARY: move memoise function definitions outside the reactive({}) blocks

    • e.g. prepareSashimi_m
    • also check use_memoise and create non-memoise version

  • UNNECESSARY: move gene_exon_structure gene2gg() into separate reactive function that depends upon:

show_gene_model_d() # if FALSE then return NULL
flatExonsByGene1 <- get_flat_gene_exons_plot();
gene <- get_active_gene();
get_gene_coords()
exonLabelSize=14 + exon_label_size_d() + font_sizing_d()
  • consider moving plotly sashimi creation into separate function
gg_ly <- get_plotly_sashimi() # reactive
  • consider moving ggplot2 sashimi creation into separate function
gg_ly <- getgg_plot2_sashimi() # reactive

  • COMPLETE: allow gene/transcript/exon model panel height to be adjusted

  • TODO: when there are 2+ panel columns, display gene model below each column

  • TODO: when "show detected transcripts" is not checked, re-calculate flat exons for that gene

  • organize dependency tree and see if there are shortcuts in the process

  • File issue with ggrepel, ask if labels outside plot range can be hidden, for example when using coord_cartesian() to limit visual range.