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columncorrelations.qmd
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---
title: "Column Correlations"
author: "Cox Lab"
format:
html:
toc: true
toc-depth: 4
toc-expand: false
number-sections: true
number-depth: 4
editor: source
date: today
bibliography: references.bib
---
# General
* **Type:** - Matrix Processing
* **Heading:** - Basic (Processing)
* **Source code:** not public.
# Brief description
Correlation coefficients are calculated between the specified columns of the matrix.
Output: A matrix containing the correlation coefficients.
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The recommended sections are these, but they may be changed on a case by case basis.
===== Detailed description =====
===== Parameters =====
===== Theoretical background =====
===== Examples =====
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# Parameters
## Type
Defines the measure of correlation that should be calculated between the selected columns (default: Pearson correlation). It can be selected from a list of correlation coefficients:
- Log2(Absence-presence enrichment factor)
- Absence-presence -Log10(p-value)
- Numbers of valid pairs
- Valid pairs percentage
- Pearson correlation
- -Log10(Pearson p-value)
- -Log10(Pearson p-value) \[correlation\]
- -Log10(Pearson p-value) \[anti-correlation\]
- R squared
- Spearman rank correlation
- -Log10(Spearman p-value)
- -Log10(Spearman p-value) \[correlation\]
- -Log10(Spearman p-value) \[anti-correlation\]
- Kendall rank correlation
- Distance correlation
- Mutual information
- Euclidean distance
- Manhattan distance
- Maximum distance
## Rows
Selected expression/numerical columns that will be the rows of the generated correlation matrix (default: all expression columns are selected).
## Columns
Selected expression/numerical columns that will be the columns of the generated correlation matrix (default: all expression columns are selected).
# Parameter window
