MassArray - Analytical Tools for MassArray Data

This package is designed for the import, quality control, analysis, and visualization of methylation data generated using Sequenom's MassArray platform. The tools herein contain a highly detailed amplicon prediction for optimal assay design. Also included are quality control measures of data, such as primer dimer and bisulfite conversion efficiency estimation. Methylation data are calculated using the same algorithms contained in the EpiTyper software package. Additionally, automatic SNP-detection can be used to flag potentially confounded data from specific CG sites. Visualization includes barplots of methylation data as well as UCSC Genome Browser-compatible BED tracks. Multiple assays can be positionally combined for integrated analysis.

Last updated 4 months ago

immunooncologydnamethylationsnpmassspectrometrygeneticsdataimportvisualization

4.30 score 1 scripts 220 downloads

HELP - Tools for HELP data analysis

The package contains a modular pipeline for analysis of HELP microarray data, and includes graphical and mathematical tools with more general applications.

Last updated 4 months ago

cpgislanddnamethylationmicroarraytwochanneldataimportqualitycontrolpreprocessingvisualization

4.18 score 76 scripts 292 downloads

RadOnc - Analytical Tools for Radiation Oncology

Designed for the import, analysis, and visualization of dosimetric and volumetric data in Radiation Oncology, the tools herein enable import of dose-volume histogram information from multiple treatment planning system platforms and 3D structural representations and dosimetric information from 'DICOM-RT' files. These tools also enable subsequent visualization and statistical analysis of these data.

Last updated 29 days ago

3.78 score 8 stars 19 scripts 287 downloads