tRigon: an R package and Shiny App for integrative (path-)omics data analysis.
BMC Bioinformatics
; 25(1): 98, 2024 Mar 05.
Article
en En
| MEDLINE
| ID: mdl-38443821
ABSTRACT
BACKGROUND:
Pathomics facilitates automated, reproducible and precise histopathology analysis and morphological phenotyping. Similar to molecular omics, pathomics datasets are high-dimensional, but also face large outlier variability and inherent data missingness, making quick and comprehensible data analysis challenging. To facilitate pathomics data analysis and interpretation as well as support a broad implementation we developed tRigon (Toolbox foR InteGrative (path-)Omics data aNalysis), a Shiny application for fast, comprehensive and reproducible pathomics analysis.RESULTS:
tRigon is available via the CRAN repository ( https//cran.r-project.org/web/packages/tRigon ) with its source code available on GitLab ( https//git-ce.rwth-aachen.de/labooratory-ai/trigon ). The tRigon package can be installed locally and its application can be executed from the R console via the command 'tRigonrun_tRigon()'. Alternatively, the application is hosted online and can be accessed at https//labooratory.shinyapps.io/tRigon . We show fast computation of small, medium and large datasets in a low- and high-performance hardware setting, indicating broad applicability of tRigon.CONCLUSIONS:
tRigon allows researchers without coding abilities to perform exploratory feature analyses of pathomics and non-pathomics datasets on their own using a variety of hardware.Palabras clave
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Aplicaciones Móviles
Idioma:
En
Revista:
BMC Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2024
Tipo del documento:
Article
País de afiliación:
Alemania