… of next generation sequencing technology have decreased over the past years, there is still
a lack of simple-to-use applications, for a comprehensive analysis of RNA sequencing data. …

… PRADA (Pipeline for RNA-Sequencing Data Analysis), a … by multifaceted analysis starting
from raw paired-end RNA-seq data… sensitivity and refines the analytical endpoints. PRADA has …

… Taken together, our proposed pipeline includes all relevant RNA sequencing data
processing modules, is easily applicable, and needs no time consuming installation processes. …

… RNA sequencing (scRNA-seq) methods has created a large variety of experimental and
computational pipelines … Here, we use simulations based on five scRNA-seq library protocols in …

… However, no single analysis pipeline can capture dynamics of the entire transcriptome. Here…
commonly used analytical pipeline covering the entire spectrum of transcriptome analysis, …

… Using these principles we have created a flexible analysis pipeline that carries out many
standard tasks, adds several very recently developed algorithms for immunological analysis …

… easily and quickly adapt the analysis process to the characteristics of … RNA-Seq data analysis
pipelines, it does not allow the user to pipe any possible method at any step of the analysis …

… Note that for the ROC analysis we show results for both gene level and transcript level analysis
and the transcript level metrics were substantially worse (Fig. 6). Previous publications [5] …

… In this paper, we focus on an RNA-Seq data analysis pipeline … The pipeline consists of a
number of modules for RNASeq … the pipeline Oscript, user can remove and modify analysis …

… iRAP also includes multiple tools for gene set enrichment analysis and generates web
browsable reports of the results obtained in the different stages of the pipeline. Depending upon …