nb_exch_deut

Provides a vector with number of exchangeable protons, calculated from the input table.
Number of protons calculated as peptide_length - 2 - number of Prolines in the peptide
that are not in the first position

A protocol that facilitates the processing and analysis of Hydrogen-Deuterium Exchange Mass Spectrometry data using p-value statistics and Critical Interval analysis.
It provides a pipeline for analyzing data from 'HDXExaminer' (Sierra Analytics, Trajan Scientific),
automating matching and comparison of protein states through Welch's T-test and the Critical Interval statistical framework.
Additionally, it simplifies data export, generates 'PyMol' scripts, and ensures calculations meet publication standards.
'HDXBoxeR' assists in various aspects of hydrogen-deuterium exchange data analysis, including reprocessing data, calculating parameters, identifying significant peptides,
generating plots, and facilitating comparison between protein states.
For details check papers by Hageman and Weis (2019) <doi:10.1021/acs.analchem.9b01325>
and Masson et al. (2019) <doi:10.1038/s41592-019-0459-y>.
'HDXBoxeR' citation: Janowska et al. (2024) <doi:10.1093/bioinformatics/btae479>.

Maria K. Janowska

HDXBoxeR

Analysis of Hydrogen-Deuterium Exchange Mass-Spectrometry Data

Katherine Reiter

Pearl Magala

Miklos Guttman

Rachel E. Klevit

nb_exch_deut function

<dl><dt>df</dt>
<dd>standard deviation from one sample</dd></dl>

Arguments

Number of exchangeable protons — nb_exch_deut

<dl>

<dt>df</dt>
<dd>standard deviation from one sample</dd>

</dl>

nb_exch_deut: Number of exchangeable protons

Description

Usage

Value

Arguments

Examples