scale_vast_grouped

A variation of <code>scale_vast</code> but uses a group-specific coefficient of variation and therefore requires group information. See <code>scale_vast</code> and the References section for more information.

Facilitate tasks typically encountered during metabolomics data analysis including data import, filtering, missing value imputation (Stacklies et al. (2007) <doi:10.1093/bioinformatics/btm069>, Stekhoven et al. (2012) <doi:10.1093/bioinformatics/btr597>, Tibshirani et al. (2017) <doi:10.18129/B9.BIOC.IMPUTE>, Troyanskaya et al. (2001) <doi:10.1093/bioinformatics/17.6.520>), normalization (Bolstad et al. (2003) <doi:10.1093/bioinformatics/19.2.185>, Dieterle et al. (2006) <doi:10.1021/ac051632c>, Zhao et al. (2020) <doi:10.1038/s41598-020-72664-6>) transformation, centering and scaling (Van Den Berg et al. (2006) <doi:10.1186/1471-2164-7-142>) as well as statistical tests and plotting. 'metamorphr' introduces a tidy (Wickham et al. (2019) <doi:10.21105/joss.01686>) format for metabolomics data and is designed to make it easier to build elaborate analysis workflows and to integrate them with 'tidyverse' packages including 'dplyr' and 'ggplot2'.

Yannik Schermer

metamorphr

Tidy and Streamlined Metabolomics Data Workflows

scale_vast_grouped function

<dl><dt>data</dt>
<dd>A tidy tibble created by <code>read_featuretable</code>.</dd>
<dt>group_column</dt>
<dd>Which column should be used for grouping? Usually <code>grouping_column = Group</code>. Uses <code>args_data_masking</code>.</dd></dl>

Arguments

Scale intensities of features using grouped vast scaling — scale_vast_grouped

<dl>

<dt>data</dt>
<dd>A tidy tibble created by <code>read_featuretable</code>.</dd>


<dt>group_column</dt>
<dd>Which column should be used for grouping? Usually <code>grouping_column = Group</code>. Uses <code>args_data_masking</code>.</dd>

</dl>

scale_vast_grouped: Scale intensities of features using grouped vast scaling

Description

Usage

Value

Arguments

References

Examples