splicejam_shiny_deps.md

In jmw86069/splicejam: Analysis and Visualization of Gene Splice Variants and Transcriptome Data

observe

• gene search, coord, junction minimum inputs
• enable "Update" button

observe

• input$gene

• if "blank" then

  • disable slider bars
  • disable "Update" button

• if not "blank" then

  • get_flat_gene_exons()
  • update coord slider bar
  • update exon name slider bar
  • update coord label

get_default_gene()

• depends
  • get_gene_choices()

get_flat_gene_exons()

• input$gene
• returns exons for gene query

get_active_gene()

• input$calc_gene_params
• create list of gene query variables
• disable "Update" button
• return list

get_flat_gene_exons_plot()

• depends
  • get_active_gene()
• returns list(flatExonsByGene, gene_vals)

get_gene_coords()

• depends
  • get_flat_gene_exons_plot()
• return NULL if gene="blank"
• return gene_coords from slider bar logic

get_sashimi_data()

• depends
  • get_flat_gene_exons_plot()
  • get_sample_id_dt()
• creates prepareSashimi_m() if it does not exist
• isolate(input$gene)
• sashimi_data <- prepareSashimi_m()
• repeats some steps if some data is NULL
• progress bar update

output$sashimiplot_output <- renderUI()

• depends
  • get_sashimi_data()
  • share_y_axis_d()
  • do_plotly_d()
  • show_gene_model_d()
    • show_tx_model_d()
    • show_detected_tx_d()
    • exon_label_size_d()
    • font_sizing_d()
  • panel_height_d()
  • font_sizing_d()

jmw86069/splicejam documentation built on Nov. 4, 2024, 10:53 a.m.