DROP 1.0.3-foss-2020a-Python-3.8.2-R-4.0.0

DROP (Detection of RNA Outliers Pipeline) is intended to help researchers use RNA-Seq data in order to detect genes with aberrant expression, aberrant splicing and mono-allelic expression. It consists of three independent modules for each of those strategies.

Accessing DROP 1.0.3-foss-2020a-Python-3.8.2-R-4.0.0

To load the module for DROP 1.0.3-foss-2020a-Python-3.8.2-R-4.0.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load DROP/1.0.3-foss-2020a-Python-3.8.2-R-4.0.0

BEAR Apps Version

2020a

Architectures

EL8-cascadelake — EL8-haswell — Ubuntu20.04-haswell

The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR 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.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

Extensions

  • click-log-0.3.2
  • drop 1.0.3
  • egg 0.4.5
  • extraDistr 1.9.1
  • FRASER 1.2.1
  • heatmaply 1.2.1
  • OUTRIDER 1.7.1
  • qap-0.1-1
  • seriation-1.2-9
  • tMAE 1.0.0
  • TSP-1.1-10
  • wbuild 1.8.0

More Information

For more information visit the DROP website.

Dependencies

This version of DROP has a direct dependency on: BCFtools/1.10.2-GCC-9.3.0 foss/2020a GATK/4.1.5.0-GCCcore-9.3.0-Java-11 Graphviz/2.44.1-foss-2020a HTSlib/1.10.2-GCC-9.3.0 Pandoc/2.10 PRROC/1.3.1-foss-2020a-R-4.0.0 Python/3.8.2-GCCcore-9.3.0 PyYAML/5.3-GCCcore-9.3.0 R/4.0.0-foss-2020a R-bundle-Bioconductor/3.11-foss-2020a-R-4.0.0 SAMtools/1.10-GCC-9.3.0 SciPy-bundle/2020.03-foss-2020a-Python-3.8.2 snakemake/5.31.1-foss-2020a-Python-3.8.2 wget/1.20.3-GCCcore-9.3.0

Last modified on 18th March 2021