CellPhoneDB 3.1.0-foss-2020b

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.

Accessing CellPhoneDB 3.1.0-foss-2020b

To load the module for CellPhoneDB 3.1.0-foss-2020b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load CellPhoneDB/3.1.0-foss-2020b

BEAR Apps Version

2020b

Architectures

EL8-cascadelake — EL8-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

  • aniso8601 8.1.0
  • anndata 0.7.5
  • boto3 1.16.14
  • botocore 1.19.14
  • CellPhoneDB 3.1.0
  • click 7.1.2
  • docutils 0.16
  • fbpca 1.0
  • Flask 1.1.2
  • Flask-RESTful-0.3.8
  • Flask-Testing-0.8.1
  • geosketch 0.3
  • greenlet 0.4.17
  • h5py 2.10.0
  • idna 2.10
  • itsdangerous 1.1.0
  • Jinja2 2.11.2
  • jmespath 0.10.0
  • MarkupSafe 1.1.1
  • natsort 7.1.0
  • numpy_groupies 0.9.13
  • pika 1.2.0
  • PyYAML 5.4.1
  • requests 2.25.0
  • rpy2 3.4.1
  • s3transfer 0.3.3
  • scikit-learn-0.22
  • simplegeneric 0.8.1
  • SQLAlchemy 1.3.20
  • tzlocal 2.1
  • urllib3 1.25.11
  • Werkzeug 1.0.1

More Information

For more information visit the CellPhoneDB website.

Dependencies

This version of CellPhoneDB has a direct dependency on: foss/2020b Python/3.8.6-GCCcore-10.2.0 R/4.0.3-foss-2020b SciPy-bundle/2020.11-foss-2020b tqdm/4.56.2-GCCcore-10.2.0

Last modified on 25th January 2023