/
filtervalidvaluescolumns.qmd
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filtervalidvaluescolumns.qmd
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---
title: "Filter columns based on valid values"
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:** - Filter columns
- **Source code:** [FilterValidValuesColumns.cs](https://github.com/JurgenCox/perseus-plugins/blob/master/PerseusPluginLib/Filter/FilterValidValuesColumns.cs)
# Brief description
Columns of the expression matrix are filtered to contain at least the specified numbers of entries that are valid in the specified way.
Output: The matrix of expression values is constrained to contain only these columns that fulfill the requirement.
```{=html}
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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
## Min. number of values
Specifies minimal number of valid values each expression column needs to contain to survive the filtering process (default: 3).
## Mode
Defines, which expression columns are counted to define, if a row has enough valid values to survive the filtering process (default: In total).
## Values should be
Defines the restriction for a value to be classified as valid (default: Valid).
There are seven different possibilities to specify, which entry is counted as a valid value (default: Valid):
- Valid
- Greater than
- Greater or equal
- Less than
- Less or equal
- Between
- Outside
### Minimum
This parameter is just relevant, if "Values should be" is set to "Greater than", "Greater or equal", "Between" or "Outside".
It defines a lower bound to apply the operation specified in "Values should be" (default: 0).
### Maximum
This parameter is just relevant, if "Values should be" is set to "Less than", "Less or equal", "Between" or "Outside".
It defines a upper bound to apply the operation specified in "Values should be" (default: 0).
## Filter mode
The "Filter mode" defines, whether the input matrix will be reduced ("Reduce matrix" = default) or a new categorical column called "Filter" will be generated containing the categories "Keep" and "Discard" ("Filter mode" = "Add categorical column").
# Parameter window
