{% extends "layout_bs4.html" %} {% from "cases/collapsible_actionbar.html" import action_bar, research_modal, rerun_modal %} {% from "utils.html" import comments_panel, activity_panel %} {% from "cases/utils.html" import individuals_table %} {% from "cases/case_ideograms.html" import case_ideograms %} {% from "variants/utils.html" import tier_cell %} {% block title %} {{ super() }} - {{ institute.display_name }} - {{ case.display_name }} {% endblock %} {% block css %} {{ super() }} {% endblock %} {% block top_nav %} {{ super() }} {% endblock %} {% block content_main %}
{{ smn_case_page() }}
{% endblock %} {% macro smn_case_page() %}

Case: {{case.display_name}}

{{ smn_individuals_table(case, institute, tissue_types) }}
{% if case.madeline_info and case.individuals|length > 1 %} {{ pedigree_panel() }} {% else %}

No pedigree picture available.

{% endif %}
{{ synopsis_panel() }} {{ comments_panel(institute, case, current_user, comments) }}
{{activity_panel(events)}}
{{ modal_synopsis() }}
{% endmacro %} {% macro smn_individuals_table(case, institute, tissues) %}
SMN Copy Number status - Individuals
{% for ind in case.individuals %} {% endfor %}
Sample Sex Phenotype SMA Carrier SMN1 CN SMN2 CN SMN2Δ7–8_CN g.27134T>G CN Ancestry (pred.) Tissue
{{ ind.display_name }} {% if ind.sex_human in ['female','male'] %} {% else %} {{ind.sex_human}} {% endif %} {% if ind.confirmed_sex %} {% endif %} {{ ind.phenotype_human }} {{ ind.is_sma }} {{ ind.is_sma_carrier }} {{ ind.smn1_cn }} {{ ind.smn2_cn }} {{ ind.smn2delta78_cn }} {{ ind.smn_27134_cn }} {{ ind.predicted_ancestry or 'N/A' }} {{ ind.tissue_type }}
{% endmacro %} {% macro pedigree_panel() %}
Pedigree
{{ case.madeline_info|safe }}
{% endmacro %} {% macro synopsis_panel() %}
Synopsis
{{ case.synopsis|markdown if case.synopsis else 'Nothing written yet...' }}
{% endmacro %} {% macro modal_synopsis() %}
{% endmacro %} {% block scripts %} {{ super() }} {% endblock %}