CU Anschutz-HPC-documentation
All documentation associated with bioinformatics tutorial on the Alpine cluster.
Overview:
With this repository, HPC Anschutz users will fine shorts and concise documentation on bioinformatics Alpine related topics. This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.
This repository is composed of two blocks: (1) An FAQ block, (2) An Alpine pipeline optimization FAQ and (3) A Quickbytes tutorial block.
I- FAQ:
- For questions regarding Alpine maintenance please visit here.
II- Alpine pipeline optimization FAQ:
- For questions regarding Alpine maintenance please visit here.
III- Quickbytes:
Quickbytes that are designed for package installation and pipeline optimization.
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R packages installation:
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MATLAB installation in Juputerlab:
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Deep learning applications installation on Alpine:
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Guide to use mamba instead of anaconda on Alpine:
IV- Office hours presentation slides:
V- Alpine storage:
VI- Lab workshops:
Workshops given to customized to labs that have been already given. Send an email to rc-help@colorado.edu to request a workshop.
- List of workshops:
- NVIDIA Mark IIII Sys workshop series (05/04/23 to 06/22/23). Additional information can be found here.
- Introduction to the Shell - Barocas lab
- Introduction to Slurm - Barocas lab
- Introduction to Alpine - Kalpathy-Cramer lab
- Introduction to Slurm and Petalibrary - Lange lab
- GPU partitions on Alpine Janani lab 090623
- Alpine entry level workshop 090723
- Immuno 6110 class 090723
- Intro to spack part 1 10/17/23
- Intro to Horovod part 1 10/24/23
- Alpine entry level workshop 110223
- Intro to GPU computing part 1 112823
- Intro to GPU computing part 2 113023
- Intro to GPU computing part 3 120423