CellRank 1.5.1-foss-2021a

CellRank is a toolkit to uncover cellular dynamics based on Markov state modeling of single-cell data. It contains two main modules: kernels compute cell-cell transition probabilities and estimators generate hypothesis based on these.

Accessing CellRank 1.5.1-foss-2021a

To load the module for CellRank 1.5.1-foss-2021a please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load CellRank/1.5.1-foss-2021a

BEAR Apps Version

2021a

Architectures

EL8-cascadelake — EL8-haswell — EL8-icelake

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

  • CellRank 1.5.1
  • docrep 0.3.2
  • joblib 1.1.0
  • progressbar2 3.55.0
  • pygam 0.8.0
  • pygpcca 1.0.3
  • python-utils-3.2.2
  • wrapt 1.14.1

More Information

For more information visit the CellRank website.

Dependencies

This version of CellRank has a direct dependency on: foss/2021a PETSc/3.15.1-foss-2021a petsc4py/3.15.0-foss-2021a Python/3.9.5-GCCcore-10.3.0 scikit-learn/0.24.2-foss-2021a scVelo/0.2.4-foss-2021a SLEPc/3.15.1-foss-2021a slepc4py/3.15.1-foss-2021a typing-extensions/3.10.0.0-GCCcore-10.3.0

Last modified on 20th May 2022