KnowSeq Shiver is the shiny-based web application of the KnowSeq R/Bioc package that allows users with no previous knowledge of programming to analyze transcriptomics data using all the functionalities available at KnowSeq.
KnowSeq Shiver is currently available at https://knowseqshiver.shinyapps.io/KnowSeq-ShiVer/
Furthermore, if you want to take advantage of your own hardware, there is a Docker image available to deploy KnowSeq ShiVer in local without restriction. To use it just write:
docker pull casedugr/knowseq-shiver
docker run -p 3838:3838 casedugr/knowseq-shiverAnd open the following url in your browser http://localhost:3838
Motivation: The challenges of precision medicine must be faced to achieve the paradigm shift. One of these important challenges is the development of tools with the capability of exploiting biological data to infer or extract new and relevant knowledge, and to bring these tools closer to researchers, physicians and other non-technical users.
Results: We develop KnowSeq Shiver, an interactive web-application based on KnowSeq (R/Bioconductor package) that performs transcriptomic analysis with machine learning algorithms. This online tool is implemented using R and Shiny, and it’s oriented to users with no previous knowledge of programming.
Castillo-Secilla, D., Gálvez, J. M., Carrillo-Pérez, F., Verona-Almeida, M., Redondo-Sánchez, D., Ortuno, F. M., Herrera, L. J. & Rojas, I. (2021). KnowSeq R-Bioc package: The automatic smart gene expression tool for retrieving relevant biological knowledge. Computers in Biology and Medicine, 133, 104387.
Daniel Castillo. University of Granada.
Juan Manuel Gálvez. University of Granada.
Francisco Carrillo-Pérez. University of Granada.
Marta Verona-Almeida. University of Granada.
Daniel Redondo-Sánchez. ibs.GRANADA, CIBERESP, EASP.
Francisco Manuel Ortuño. Fundación Progreso y Salud (FPS), Hospital Virgen del Rocio, Sevilla.
Luis Javier Herrera. University of Granada.
Ignacio Rojas. University of Granada.
Daniel Castillo-Secilla (cased at ugr.es) is the main developer of the R package KnowSeq.
Daniel Redondo-Sánchez (daniel.redondo.easp at juntadeandalucia.es) is the main developer of this Shiny App.
library(devtools)
devtools::session_info()## - Session info ---------------------------------------------------------------
## setting value
## version R version 4.1.0 (2021-05-18)
## os Windows 10 x64 (build 19043)
## system x86_64, mingw32
## ui RTerm
## language (EN)
## collate Spanish_Spain.1252
## ctype Spanish_Spain.1252
## tz Europe/Paris
## date 2022-04-13
## pandoc 2.17.1.1 @ C:/Program Files/RStudio/bin/quarto/bin/ (via rmarkdown)
##
## - Packages -------------------------------------------------------------------
## package * version date (UTC) lib source
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##
## [1] /R/win-library/4.1
## [2] /R/R-4.1.0/library
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