There is a newer version of PHATEPHATE (Potential of Heat-diffusion for Affinity-based Trajectory Embedding) is a tool for visualizing high dimensional single-cell data with natural progressions or trajectories. PHATE uses a novel conceptual framework for learning and visualizing the manifold inherent to biological systems in which smooth transitions mark the progressions of cells from one state to another.
Accessing PHATE 1.0.7-foss-2020a-Python-3.8.2
To load the module for PHATE 1.0.7-foss-2020a-Python-3.8.2 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):
module load PHATE/1.0.7-foss-2020a-Python-3.8.2
BEAR Apps Version
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.
- Deprecated 1.2.11
- graphtools 1.5.2
- phate 1.0.7
- PyGSP 0.5.1
- scprep 1.0.13
- tasklogger 1.0.0
- wrapt 1.12.1
For more information visit the PHATE website.
This version of PHATE has a direct dependency on: foss/2020a matplotlib/3.2.1-foss-2020a-Python-3.8.2 Python/3.8.2-GCCcore-9.3.0 scikit-learn/0.23.2-foss-2020a-Python-3.8.2 SciPy-bundle/2020.03-foss-2020a-Python-3.8.2
This version of PHATE is a direct dependent of: phateR/1.0.7-foss-2020a-R-4.0.0-Python-3.8.2
These versions of PHATE are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.
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Last modified on 9th March 2021