Analysis Pipelines

Docker Pipelines for RNA-Seq Alignment and Analyses

rna-seq

Background: Docker (https://www.docker.com) is an application that packages binary executables and scripts into modules (containers) with their software dependencies. Containers can be freely mixed and matched to form workflows that give identical results on any platform which supports Docker. The ...

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The PARA-suite – PAR-CLIP specific sequence read simulation and processing

rna-seq

Next-generation sequencing technologies have profoundly impacted biology over recent years. Experimental protocols, such as photoactivatable ribonucleoside-enhanced cross-linking and immunoprecipitation (PAR-CLIP), which identifies protein-RNA interactions on a genome-wide scale, commonly employ deep sequencing. With PAR-CLIP, the incorporation of photoactivatable nucleosides into ...

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