RNA-SeQC 2.4.2-foss-2021a

RNA-SeQC is a java program which computes a series of quality control metrics for RNA-seq data. The input can be one or more BAM files. The output consists of HTML reports and tab delimited files of metrics data. This program can be valuable for comparing sequencing quality across different samples or experiments to evaluate different experimental parameters. It can also be run on individual samples as a means of quality control before continuing with downstream analysis.

Accessing RNA-SeQC 2.4.2-foss-2021a

To load the module for RNA-SeQC 2.4.2-foss-2021a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load RNA-SeQC/2.4.2-foss-2021a

BEAR Apps Version

2021a

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

Extensions

• agutil 4.1.1
• pycryptodomex 3.9.8
• qtl 0.1.8
• rnaseqc 0.0.3
• rsa 4.6

More Information

For more information visit the RNA-SeQC website.

Dependencies

This version of RNA-SeQC has a direct dependency on: Boost/1.76.0-GCC-10.3.0 bx-python/0.8.11-foss-2021a bzip2/1.0.8-GCCcore-10.3.0 foss/2021a IPython/7.25.0-GCCcore-10.3.0 matplotlib/3.4.2-foss-2021a pyBigWig/0.3.18-foss-2021a Python/3.9.5-GCCcore-10.3.0 SciPy-bundle/2021.05-foss-2021a Seaborn/0.11.2-foss-2021a XZ/5.2.5-GCCcore-10.3.0 zlib/1.2.11-GCCcore-10.3.0

Other Versions

These versions of RNA-SeQC are available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 14th June 2022