QC report for spike-in standards for selected samples.

Date: {{today}}

Samples analyzed in this report:

Measured abundance vs. expected concentration

Scatter plot of measured abundance (in counts) of ERCC transcripts in log2 scale and their known concentration [attomoles/ul] in the sample in log2 scale. The number of undetected ERCC transcripts are noted in the legend and are marked with gray points in the scatter plot. The coefficient of determination (R-squared value) is calculated by comparing measured abundance of ERCCs in the sample with known concentration of ERCC spike-ins.

The histogram above the scatter plot shows the number of ERCCs per input concentration. Missing ERCC transcripts are colored in gray.

The scatter plot helps to infer the following:

  1. How well the RNA-seq experiment has measured the known concentration of the spike-ins. The strength of this linear relationship is described with coefficient of determination, which is the fraction of variation in the dependent variable (measured abundance) that is predictable from the independent variable (input concentration). In general, values above 0.9 for example are considered ideal.
  2. Whether the data spans the expected dynamic range (ERCC abundances span a 2^20 dynamic range). Based on the limit of detection for the experiment, one can identify and omit any endogenous genes in the sample that are insufficiently expressed for reliable analysis.

{% for ercc_img in ercc_imgs %}

{% if ercc_img.path %} {% else %} No ERCC transcripts detected in {{ercc_img.sample_name}}. {% endif %}


{% endfor %}