hppRNA-a is a pipeline tool for RNA-seq data analysis. The workflow uses Snakemake pipeline management software and includes Tophat-Cufflink-Cuffdiff, Subread-featureCounts-DESeq2, STAR-RSEM-EBSeq, Bowtie-eXpress-edgeR, Kallisto-sleuth, and HISAT-StringTie-Ballgown tools. The pipeline can analyze mRNAs, lncRNAs, circRNAs, and also can handle gene fusions and SNPs.
Bioinformatics; Sequencing; Transcriptomics; RNA-Seq
Wang D "hppRNA-a Snakemake-based handy parameter-free pipeline for RNA-Seq analysis of numerous samples." Brief Bioinform. 2018 Jul 20;19(4):622-626. https://doi.org/10.1093/bib/bbw143
PMID: 28096075
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