demo_data

Combiroc built-in demo data (proteomics data from Zingaretti et al. 2012 - PMC3518104). A dataset containing signal intensity values of a 5-marker signatures for Autoimmune Hepatitis (AIH). Samples have been clinically diagnosed as “abnormal” (class A) or "normal" (class B).

datasets

Provides functions and a workflow to easily and powerfully calculating specificity, sensitivity and ROC curves of biomarkers combinations. Allows to rank and select multi-markers signatures as well as to find the best performing sub-signatures, now also from single-cell RNA-seq datasets. The method used was first published as a Shiny app and described in Mazzara et al. (2017) <doi:10.1038/srep45477> and further described in Bombaci & Rossi (2019) <doi:10.1007/978-1-4939-9164-8_16>, and widely expanded as a package as presented in the bioRxiv pre print Ferrari et al. <doi:10.1101/2022.01.17.476603>.

Riccardo L. Rossi

combiroc

Selection and Ranking of Omics Biomarkers Combinations Made Easy

Ivan Ferrari

Saveria Mazzara

Mauro Bombaci

demo_data function

A data frame with 170 rows and 7 variables:<dl>
<dt>Patient.ID</dt>
<dd>the ID of samples</dd><dt>Class</dt>
<dd>the class of the samples: A-Healthy, B-AIH</dd><dt>Marker1</dt>
<dd>the signal intensity value of Marker1</dd><dt>Marker2</dt>
<dd>the signal intensity value of Marker2</dd><dt>Marker3</dt>
<dd>the signal intensity value of Marker3</dd><dt>Marker4</dt>
<dd>the signal intensity value of Marker4</dd><dt>Marker5</dt>
<dd>the signal intensity value of Marker5</dd>
</dl>

Format

A demo dataset with proteomics markers — demo_data

A data frame with 170 rows and 7 variables:<dl>
<dt>Patient.ID</dt>
<dd>the ID of samples</dd>

<dt>Class</dt>
<dd>the class of the samples: A-Healthy, B-AIH</dd>

<dt>Marker1</dt>
<dd>the signal intensity value of Marker1</dd>

<dt>Marker2</dt>
<dd>the signal intensity value of Marker2</dd>

<dt>Marker3</dt>
<dd>the signal intensity value of Marker3</dd>

<dt>Marker4</dt>
<dd>the signal intensity value of Marker4</dd>

<dt>Marker5</dt>
<dd>the signal intensity value of Marker5</dd>


</dl>

demo_data: A demo dataset with proteomics markers

Description

Usage

Arguments

Format

Examples