Slides & Handouts
Slides and handouts for past training sessions will be posted here
Wednesday November 20, 2024 - Managing BioHPC Resources: Town Hall Invitation
BioHPC Town Hall: Adjustments to the Charge-Back Model and Resource Optimization
Wednesday October 2nd, 2024 - Introduction to BioHPC - New User Training
NewUserTraining_2024_10_02.pptx
Wednesday September 25, 2024 - Coffee with BioHPC: Upgrading to RHEL8/9: Enhancing Security and Performance for BioHPC
Upgrading to RHEL8/9: Enhancing Security and Performance for BioHPC
Wednesday August 28, 2024 - Coffee with BioHPC: CryoEM Resources on the BioHPC Platform.
Wednesday July 24, 2024 - Coffee with BioHPC: Exploring Astrocyte Workflows
Single Cell Analysis_John_Lafin
ATAC_Seq_Workflow_Achisha_Felix
Recordings:
Achisha and Felix's Presentation
Wednesday June 26, 2024 - Coffee with BioHPC: Open Q&A with BioHPC Staff!
BioHPC_Coffee_Session_GPU_Hung.pptx
Wednesday May 22, 2024 - Coffee with BioHPC: Explore Generative AI, Astrocyte's VizApp, Ray, and More!
BioHPC_Coffee_Session_Ray_MA.pptx
BioHPC_Coffee_Session_NeMo_Ram.pptx
BioHPC-Coffee-Session_Peng.html (Open html page in the web browser)
Wednesday April 24, 2024 - Coffee with BioHPC: Exploring flywheel for Radiology research and AI
BioHPC_coffee_talk_flywheel.pdf
Wednesday March 6, 2024 - Introduction to BioHPC - New User Training
NewUserTraining_2024_03_06.pdf
Wednesday January 3, 2024 - Introduction to BioHPC - New User Training
NewUserTraining_2024_01_03.pdf
Wednesday November 15, 2023 - Storage, Workstation, and Thin Client Training
Storage & Workstation Training
Wednesday Nov 1, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_11_01.pdf
Wednesday Oct 18, 2023 - Image Processing with MATLAB I - Basics
01_basics.mlx
02_whole_images.mlx
03_segmentation.mlx
04_regions_of_interest.mlx
05_deconvolution.mlx
Wednesday Oct 11, 2023 - Build, Run, and Manage Containers with Podman
Wednesday Sep 27, 2023 - cryoEM resource on BioHPC
CryoEM_resource_On_BioHPC_09272023.pdf
Wednesday Sep 20, 2023 - Image processing using Python
image_processing_python_2023_09_20.pdf
Wednesday Sep 13, 2023 - Software Installation
software_installation_2023_09_13.pdf
Wednesday Sep 6, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_09_06.pdf
Wednesday Aug 2, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_08_02.pdf
Wednesday Jul 12, 2023 - High-level Storage Overview
Wednesday Jul 5, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_07_05.pdf
Wednesday Jun 28, 2023 - An Introduction to VS Code
An Introduction to VS Code.pdf
Wednesday Jun 14, 2023 - Data handling with R
data_preprocessing_R_06142023.pdf
Wednesday Jun 7, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_06_07.pdf
Wednesday May 17, 2023 - Alphafold on BioHPC
20230517-AlphaFold_on_BioHPC-PL.pdf
Wednesday May 10, 2023 - Optimization Scientific Computing with Python: NumPy, Numba, JAX
Accelerated Scientific Computing with Python
Wednesday May 3, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_05_03.pdf
Wednesday April 26, 2023 - Reproducibility Series: Introduction to Containers and Singularity
Wednesday April 19, 2023 - BioHPC Post downtime update
BioHPC Roadmap Apr. 2023
Wednesday Apr 5, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_04_05.pdf
Wednesday March 22, 2023 - Lab Data Management
20230322LabDataManagemenTraining.pdf
Wednesday Febuary 17, 2023 - Data visualization with Paraview
Introduction_to_Visualizing_Large_Data_with_ParaView.pdf
Wednesday January 25, 2023 - Jupyter Notebook
Jupyter_Notebook_2023_01_25.pdf
Wednesday January 4, 2023 - Introduction to BioHPC - New User Training
NewUserTraining_2023_01_04.pdf
Wednesday December 7, 2022 - Introduction to BioHPC - New User Training
NewUserTraining_2022_12_07.pdf
Wednesday November 9, 2022 - Introduction to Git and GitLab
Introduction_to_Git_and_GitLab
Wednesday November 2, 2022 - Introduction to BioHPC - New User Training
NewUserTraining_2022_11_02.pdf
Wednesday October 26, 2022 - Image Processing III - Introduction to CryoEM Resources on BioHPC
Wednesday October 19, 2022 - Image Processing with MATLAB
Image_Processing_with_MATLAB.pdf
basics.mlx
whole_images.mlx
segmentation.mlx
regions_of_interest.mlx
deconvolution.mlx
Wednesday October 12, 2022 - Image Processing with Python
BioHPC_Python_image_processing_10_12_2022.pdf
2022_12_15__python_image_processing__resources.zip
Wednesday September 28, 2022 - Molecular Dynamcis (MD) Simulation with BioHPC
20220928 - Molecular Dynamcis (MD) Simulation with BioHPC
Wednesday June 22, 2022 - Distributed Deep Learning
20220622 Distributed Deep Learning with Python
Installation guid: openmpi with CUDA
pytorch_synthetic_benchmark.py
submit_horovod_pytorch_multi_gpu.sh
Wednesday May 11, 2022 - BioHPC storage overview
biohpc_storage_overview_05092022.pdf
Wednesday April 27, 2022 - Homology Modeling and GPCR Drug Discovery with BioHPC
20220427_drug_discovery_with_biohpc.pdf
Wednesday April 20, 2022 - Principal Component Analysis
Wednesday March 23, 2022 - Alphafold from Google DeepMind: Multimer and Astrocyte workflow
Wednesday March 16, 2022 - Introduction to BioHPC - Data handling with R
2022_03_16_data_handling_with_r.pdf
Wednesday March 9, 2022 - Introduction to BioHPC - Jupyter Notebook
Wednesday March 2, 2022 - Introduction to BioHPC - New User Training
NewUserTraining_2022_11_02.pdf
Wednesday February 23 2022 - Astrocyte: A Scientific Workflow Platform on the BioHPC Cluster
20220223-astrocyte.pdf (9.0 MB)
Wednesday February 16 2022 - Software Installation on BioHPC
2022_02_16_software_installation_on_biohpc.pdf (2.0 MB)
Wednesday February 9 2022 - Introduction to Python on BioHPC
2022_02_09_python_on_biohpc.pdf (1.9 MB)
python_on_biohpc_scripts_2022.zip (538.9 KB)
Wednesday January 26 2022 - Introduction to Linux (Part 3)
linux3.pdf (737.5 KB)
Wednesday January 19 2022 - Introduction to Linux (Part 2)
linuxii.pdf (1.0 MB)
Wednesday January 12 2022 - Introduction to Linux (Part 1)
introlinux_2022.pdf (1.7 MB)
Wednesday December 15, 2021 - Introduction to Image Processing with Python
python_image_processing_2021_12_15_.pdf (5.3 MB)
2021_12_15__python_image_processing__resources.zip (2.2 MB)
Wednesday November 17, 2021 - Running CryoSparc on BioHPC
cryosparc_on_biohpc_11172021.pptx (1.9 MB)
Wednesday November 10, 2021 - Introduction to GitLab CI/CD (Continuous Integration / Continuous Delivery)
gitlab_ci.pdf (2.7 MB)
Wednesday October 27, 2021 - Introduction to Deep Learning
10_26_2021_keras.pdf (2.6 MB)
Wednesday October 20, 2021 - Software installation on BioHPC
user_software_installation_in_biohpc.pdf (642.3 KB)
Wednesday October 13, 2021 - Introduction to ImageJ
imagej_biohpc_2021.pdf (2.2 MB)
Wednesday September 15 2021 - Alphafold, Google Deepmind's protein prediction platform
alphafold_09152021.pdf (1.7 MB)
Wednesday September 8 2021 - An Introduction of Hyperparameter Optimization with BioHPC
20210908_parameter_runner.pdf (2.7 MB)
Wednesday August 18 2021 - Linux Workshop
linux_workshop.pdf (831.0 KB)
Wednesday August 18 2021 - Machine Learning with R
machine_learning_using_r.pdf (328.6 KB)
r_project_files.zip (98.5 KB)
Wednesday August 11 2021 - Introduction to Git and GitLab
gitintro.pdf (1.8 MB)
Wednesday July 28 2021 - GitLab Container Registry
gitlab_container_registry.pptx (927.7 KB)
Wednesday July 14 2021 - Visualization on BioHPC
2021_07_14_biohpc_visualization.pdf (3.5 MB)
Monday July 12 2021 - BioHPC TownHall
20210712town_hall_final_.pdf (3.7 MB)
Wednesday June 23 2021 - Drug Discovery with BioHPC
20210623_drug_discovery_with_biohpc.pdf (5.9 MB)
Wednesday June 16 2021 - cryoEM resources on BioHPC
cryoem_resource_on_biohpc_061621.pdf (2.7 MB)
sample_job_submission_script.zip (931 bytes)
Wednesday June 9 2021 - Workstations and Thin Clients
workstation_presentation9.pdf (4.0 MB)
Wednesday May 19 2021 - Jupyter Notebook
jupyter-notebook-20210519.pptx (1.8 MB)
jupyter_demos_2021.zip (14.7 MB)
Wednesday May 12 2021 - Introduction to Spark
biohpc_spark_intro_5_12_2021.pdf (731.0 KB)
submit_spark_pi.sh (2.0 KB)
Wednesday April 28 2021 - Data handling in R
data_handling_r_04282021.pdf (1.6 MB)
Wednesday April 20 2021 - Singularity on BioHPC
2021_04_20_singularity.pdf (1018.9 KB)
Wednesday April 14 2021 - SLURM
slurm.pdf (1.5 MB) demos.zip (7.7 MB)
Wenesday March 24 2021 - Efficient Use of BioHPC Storage Systems
biohpc_efficient_storage_solutions.pdf (670.0 KB)
Wednesday March 17 2021 - Reproducible Developmental Environment with Vagrant
20210317_reproducible_del_env_with_vagrant.pdf (256.4 KB)
Wednesday Feburary 24 2021 - Introduction to Linux (Part II) grep - sed - awk
linuxii_jupyter_bash_kernel_guides_02242021.pdf (600.9 KB)
linuxii_grep_sed_awk_02242021.zip (1.8 MB)
Wednesday February 10 2021 - Introduction to Linux (Part 1)
introlinux.pdf (1.7 MB)
Wednesday January 20 2021 - Storage on BioHPC
biohpc_storage_training_01202021.pdf (1.3 MB)
Wednesday January 13 2021 - Python on BioHPC
2021_01_13_python_on_biohpc.pdf (4.1 MB)