{% extends 'report/layouts/base.html' %} {% block body %}
{{ _('Sample') }} | {{ _('Group') }} | {{ _('Cutoff') }} [x] | {% if includes_splice_sites %}{{ _('Included splice sites') }} | {% endif %}
---|---|---|---|
{{ sample.id }} | {{ sample.group_id }} | {{ sample.cutoff }} | {% if includes_splice_sites %}{{ sample.extension }} | {% endif %}
{{ _('Sample') }} | {{ _('Average coverage') }} [x] | {{ _('Average completeness') }} [%] |
---|---|---|
{{ sample_id }} | {{ coverage|round(3) }} | {{ (completeness * 100)|round(3) }} |
{{ _('Sample') }} | {{ _('Diagnostic yield') }} [%] |
---|---|
{{ sample_id }} | {{ (value * 100)|round(3) }} |
{{ _('Sample') }} | {{ _('Gender') }} | {{ _('Average coverage') }} [x] | |
---|---|---|---|
{{ _('Chromosome') }} X | {{ _('Chromosome') }} Y | ||
{{ sample_id }} | {{ _(gender) }} | {{ x_coverage|round(3) }} | {{ y_coverage|round(3) }} |
{{ _('The parts of the genome that has been analyzed') }} {{ _('is composed of all protein coding, exonic intervals') }} {{ _('referenced in the') }} {{ _('CCDS database') }}. {% if includes_splice_sites %} {{ _('Additionally, the data also includes spicing sites') }} ({{ _('donator and acceptor positions') }}, {{ splice_site_interval }} {{ _('bases on either of each exon') }}). {% endif %}
{% if config.CHANJO_PANEL %}
{{ _('Final coverage metrics were calculated for genes from the clinical panels') }}:
{{ config.CHANJO_PANEL_NAME }}
.
{{ _('Note that estimations were made regarding coverage and completeness') }}
{{ _('on the level of transcripts') }}.
{{ _('Coverage') }}: {{ _('An alternative measure of sequence depth') }}. {{ _('It is defined as the ratio of bases') }} {{ _('sequenced deeper than a specified cutoff') }}, {{ _('e.g. 10x') }}. {{ _('The current cutoff is defined per sample') }} {{ _('and is found i the "Cutoff" column (first table)') }}.
{{ _('Completeness') }}: {{ _('gives an overview of the success of sequencing') }}. {{ _("It's defined as the ratio of transcripts") }} {{ _('with a completeness of') }} 100%.
{{ _('Gender prediction from data') }}: {{ _('calculated by comparing relative chromosome coverage') }} (X/Y). {{ _('Some reads randomly map to the Y chromosome') }}. {{ _('Therefore, a less than 10 fold difference is used to infer a "male" sample') }}.