No articles match
Calculations8 months ago
Initial processing of the data | Calculation of the deuterium uptake | Deuterium uptake | Fractional deuterium uptake | Theoretical deuterium uptake | Theoretical fractional deuterium uptake | Differential values | Deuterium uptake averaging | Back-exchange | AUC
HaDeX2 1.0.0Weronika Puchala datafiles.Rmd
Data visualization8 months ago
Visualizing HDX-MS data | Comparison plot | Woods plot | Butterfly plot | Butterfly differential plot | Chiclet plot | Chiclet differential plot | Volcano plot | Uptake curve | Uncertainty plot | Manhattan plot | High-resolution plot | Differential High-resolution plot | High-resolution on 3D structure | Coverage heatmap | Summary of the uptake plots
HaDeX2 1.0.0Weronika Puchala visualization.Rmd
Importing data8 months ago
DynamX cluster file | DynamX state file | HDeXaminer
HaDeX2 1.0.0Weronika Puchala data_input.Rmd
Quality control8 months ago
Replicates | Uncertainty | Measurement variability plot | Back-exchange
HaDeX2 1.0.0Weronika Puchala quality_control.Rmd
Statistics8 months ago
Uncertainty propagation | Hybrid testing | Houde interval | Student's t-test
HaDeX2 1.0.0Weronika Puchala statistics.Rmd
Mass calculation8 months ago
Comparison of results with weighted mean and without
HaDeX2 1.0.0Weronika Puchala mass_comparison.Rmd
Code usage9 months ago
Convention | Example of use | Read data file | Different forms of visualization
HaDeX2 1.0.0Weronika Puchala usage.Rmd
Comparison between versions9 months ago
Comparison of visualization types | New web-server features | Functionality mapping between HaDeX and HaDeX2 | Performance benchmarking of HaDeX and HaDeX2 | HaDeX2 design
HaDeX2 1.0.0Weronika Puchala version_comparison.Rmd
Data aggregation9 months ago
Aggregation of the data - visualization
HaDeX2 1.0.0Weronika Puchala transformation.Rmd
Glossary9 months ago
Variables | Time points of measurement | Deuterium uptake values | Experimental conditions
HaDeX2 1.0.0Weronika Puchala glossary.Rmd
Example HDX-MS data analysis9 months ago
Introduction | Data analysis with HaDeX2 | Input Data | Deuterium uptake | Time-based data | Hi-res + 3D | Measurements | Sequence data | Summary
HaDeX2 1.0.0Weronika Puchala example.Rmd
Supplement to: "HaDeX: Analysis and Visualisation of Hydrogen/Deuterium Exchange Mass Spectrometry Data"1 years ago
About HaDeX | Comparison of the existing HDX-MS software | HaDeX functionalities | Data import | Computation of deuteration levels | Measured data into overall peptide mass | Experimental deuteration level | Uncertainty calculations | Theoretical deuteration level | Difference of deuteration levels between two states | Visual data analysis | Comparison of states | Woods plot | Confidence limit in Woods plot | Kinetic plots | Additional tools | Peptide coverage | Quality control | HaDeX Graphical User Interface | Examples | Example 1: CD160-HVEM | Example workflow 2 | References
HaDeX 1.2.3Weronika Puchała, Michał Burdukiewicz, Michał Kistowski, Katarzyna A. Dąbrowska, Aleksandra E. Badaczewska-Dawid, Dominik Cysewski, Michał DadlezHaDeX.Rmd
Data aggregation5 years ago
Aggregation of the data - visualization
HaDeX 1.2.3Weronika Puchala transformation.Rmd
Data processing5 years ago
Processing data from DynamX | Differences between files | Initial processing of the data | Calculation of the deuterium uptake | Deuterium uptake | Fractional deuterium uptake | Theoretical deuterium uptake | Theoretical fractional deuterium uptake | Differential values | Additional information
HaDeX 1.2.3Weronika Puchala datafiles.Rmd
Mass calculation5 years ago
Comparison of results with weighted mean and without
HaDeX 1.2.3Weronika Puchala mass_comparison.Rmd