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bioRxiv · 10.1101/616300

ABioTrans: A Biostatistical tool for Transcriptomics Analysis

Yutong, Z.·Thuy Tien, B.·Selvarajoo, K.
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Abstract

Here we report a bio-statistical/informatics tool, ABioTrans, developed in R for gene expression analysis. The tool allows the user to directly read RNA-Seq data files deposited in the Gene Expression Omnibus or GEO database. Operated using any web browser application, ABioTrans provides easy options for multiple statistical distribution fitting, Pearson and Spearman rank correlations, PCA, k-means and hierarchical clustering, differential expression analysis, Shannon entropy and noise (square of coefficient of variation) analyses, as well as Gene ontology classifications.\n\nAvailability and implementationABioTrans is available at https://github.com/buithuytien/ABioTrans\n\nOperating system(s): Platform independent (web browser)\n\nProgramming language: R (R studio)\n\nOther requirements: Bioconductor genome wide annotation databases, R-packages (shiny, LSD, fitdistrplus, actuar, entropy, moments, RUVSeq, edgeR, DESeq2, NOISeq, AnnotationDbi, ComplexHeatmap, circlize, clusterProfiler, reshape2, DT, plotly, shinycssloaders, dplyr, ggplot2). These packages will automatically be installed when the ABioTrans.R is executed in R studio.\n\nNo restriction of usage for non-academic.

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Yutong, Z., Thuy Tien, B., Selvarajoo, K.. 2019-04-23. ABioTrans: A Biostatistical tool for Transcriptomics Analysis. https://doi.org/10.1101/616300

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