ecc_finder 1.0.0_20221007_67d06f3-foss-2021b

A robust and accurate detection tool to detect eccDNA using Illumina and ONT sequencing

Accessing ecc_finder 1.0.0_20221007_67d06f3-foss-2021b

To load the module for ecc_finder 1.0.0_20221007_67d06f3-foss-2021b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load bear-apps/2021b
module load ecc_finder/1.0.0_20221007_67d06f3-foss-2021b

BEAR Apps Version

2021b

Architectures

EL8-cascadelake — EL8-haswell — EL8-icelake — 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.

More Information

For more information visit the ecc_finder website.

Dependencies

This version of ecc_finder has a direct dependency on: Biopython/1.79-foss-2021b BWA/0.7.17-GCCcore-11.2.0 CD-HIT/4.8.1-GCC-11.2.0 fastp/0.23.2-GCC-11.2.0 foss/2021b Genrich/0.6.1-GCC-11.2.0 matplotlib/3.4.3-foss-2021b minimap2/2.24-GCCcore-11.2.0 pybedtools/0.8.2-GCC-11.2.0 Pysam/0.17.0-GCC-11.2.0 Python/3.9.6-GCCcore-11.2.0 SciPy-bundle/2021.10-foss-2021b seqtk/1.3-GCC-11.2.0 TideHunter/1.5.4-GCC-11.2.0 Unicycler/0.5.0-gompi-2021b

Last modified on 11th October 2022