{% extends "base_QC.html" %} {% import 'pcaReport.html' as pca %} {% import 'sampleReportChunk.html' as sampleReport %} {% block title %}Assay Summary Report For: {{ item.Name }}{% endblock %} {% block content %}

Final Dataset

{{ item['Nsamples'] }} samples

{{ item['Nfeatures'] }} features

Sample Summary

Table 1. Sample summary table.

{{ item.sampleSummary['Acquired'].to_html() }}

*Details of any missing/excluded study samples given at the end of the report

Feature Summary

Samples acquired in {{ item['batchesCollect'] }} between {{ item['start'] }} and {{ item['end'] }}

{{ item['batchesCorrect'] }}

Table 2. Features selected based on the following criteria:

{{ item['FeatureSelectionTable'].to_html() }}

Figure 1. Sample Acquisition Structure.

{% if 'finalTICbatches' in item %}
Sample Acquisition Structure.
{% else %}

Acquired Time/Run Order data not available to plot.

{% endif %}

Figure 2. TIC for all samples and all features in final dataset.

{% if 'finalTIC' in item %}
TIC for all samples and all features passing selection.
{% else %}

Acquired Time/Run Order data not available to plot.

{% endif %}

Figure 3. Residual Standard Deviation (RSD) histogram for study reference samples and all features in final dataset, segmented by abundance percentiles.

Residual Standard Deviation (RSD) histogram for study reference samples and all features in final dataset, segmented by abundance percentiles.

Figure 4. Residual Standard Deviation (RSD) distribution for all samples and all features in final dataset (by sample type).

Residual Standard Deviation (RSD) distribution for all samples and all features in final dataset (by sample type).

Figure 5. Feature Intensity Histogram for all samples and all features in final dataset (by sample type).

Feature Intensity Histogram for all samples and all features in final dataset (by sample type).

Figure 6. Ion map of all features (coloured by log median intensity).

Ion map of all features (coloured by log median intensity).
{% if pcaPlots %} {{ pca.basicPCAReport(pcaPlots) }} {% endif %} {% if 'StudySamples Exclusion Details' in item.sampleSummary %}

Missing/Excluded Study Samples

Table 3. Details of missing/excluded study samples.

{{ item.sampleSummary['StudySamples Exclusion Details'].to_html() }} {% endif %} {% endblock %}