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1 change: 0 additions & 1 deletion _compdemos/Apptainer.md
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---
title: Using Apptainer Containers
last_modified_at: 2021-07-30
main_author: Michael Gutteridge
primary_reviewers: bmcgough, atombaby
---
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1 change: 0 additions & 1 deletion _compdemos/Docker.md
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title: Using Docker at Fred Hutch
last_modified_at: 2026-01-27
main_author: Taylor Firman, Emma Bishop
original_author: Dirk Petersen
primary_reviewers: dtenenba, dirkpetersen, tefirman
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1 change: 0 additions & 1 deletion _compdemos/alphafold3.md
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title: AlphaFold-3
last_modified_at: 2024-12-19
main_author: John Dey
primary_reviewers:
---
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1 change: 0 additions & 1 deletion _compdemos/aspera-on-nx.md
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title: Managing Aspera Connect on NoMachine
last_modified_at: 2021-05-25
main_author: Michael Gutteridge
primary_reviewers: atombaby
---
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1 change: 0 additions & 1 deletion _compdemos/managing-module-versions.md
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title: Managing Module Versions
last_modified_at: 2023-05-24
main_author: Michael Gutteridge
primary_reviewers: atombaby
---
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1 change: 0 additions & 1 deletion _compdemos/microbiome_tools.md
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title: Bioinformatics Tools for Microbiome Analysis
last_modified_at: 2020-03-25
primary_reviewers: sminot
---

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1 change: 0 additions & 1 deletion _compdemos/motuz.md
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title: Using Motuz to Move Large Data
last_modified_at: 2019-08-22
main_author: Dan Tenenbaum
primary_reviewers: dtenenba
---
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1 change: 0 additions & 1 deletion _compdemos/mydb.md
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title: Configuring Databases on MyDB
last_modified_at: 2023-02-02
primary_reviewers: fizwit, atombaby
---

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1 change: 0 additions & 1 deletion _compdemos/nextflow.md
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title: Nextflow - an Emerging Service for Workflow Management
last_modified_at: 2021-04-14
primary_reviewers: sminot
---

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1 change: 0 additions & 1 deletion _compdemos/snapshots.md
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title: Snapshots
last_modified_at: 2018-12-10
main_author: Ben McGough
primary_reviewers:
---
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1 change: 0 additions & 1 deletion _compdemos/store_job_local.md
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title: Job Local Storage
last_modified_at: 2023-04-28
main_author: Michael Gutteridge
primary_reviewers: atombaby
---
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1 change: 0 additions & 1 deletion _compdemos/toolbox.md
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title: Using Toolbox to Get Hutch Master Data
last_modified_at: 2019-01-13
main_author: Dirk Petersen
primary_reviewers: mrg, dirkpetersen
---
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1 change: 0 additions & 1 deletion _compdemos/vscode_markdown_howto.md
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title: Using Markdown with Visual Studio Code
last_modified_at: 2018-06-07
main_author: Robert McDermott
---

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1 change: 0 additions & 1 deletion _contributors/STTR.md
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title: STTR Group
last_modified_at: 2018-09-06
---
## Affiliation

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1 change: 0 additions & 1 deletion _contributors/kmcclosk.md
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title: Kylie McCloskey
last_modified_at: 2018-09-06
---
## Affiliation

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1 change: 0 additions & 1 deletion _contributors/ptvan.md
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title: Phu T. Van
last_modified_at: 2018-06-06
---
## Affiliation
Vaccine & Infectious Disease Division
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1 change: 0 additions & 1 deletion _datademos/cbio_examples_of_using_cbio.md
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title: How you can use cBioPortal
last_modified_at: 2025-04-18
main_authors: sitapriyamoorthi
primary_reviewers: tfirman, laderast
---
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1 change: 0 additions & 1 deletion _datademos/cbio_how_to_prepare_files.md
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title: Helpful tips on how to prepare files for cBioPortal
last_modified_at: 2025-04-18
main_authors: sitapriyamoorthi
primary_reviewers: tfirman, laderast
---
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1 change: 0 additions & 1 deletion _datademos/cbio_how_to_upload_data_to_cbio_s3.md
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title: Uploading your study into `fh-dasl-cbio` S3 bucket
last_modified_at: 2025-04-18
main_authors: sitapriyamoorthi
primary_reviewers: tfirman, laderast
---
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1 change: 0 additions & 1 deletion _datademos/cbio_test_access_to_cbio_s3_bucket.md
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title: Testing access to Fred Hutch cBioPortal S3 bucket
last_modified_at: 2025-04-18
main_authors: sitapriyamoorthi
primary_reviewers: tfirman, laderast
---
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1 change: 0 additions & 1 deletion _datademos/tidy-data.md
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title: Guidance for Making "Tidy" Data
last_modified_at: 2019-11-06
main_author:
primary_reviewers: ptvan
---
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1 change: 0 additions & 1 deletion _datascience/wdl_execution_engines.md
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title: WDL Execution Engines
last_modified_at: 2025-11-11
---
## What is an Execution Engine?

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1 change: 0 additions & 1 deletion _pathways/path-cbio-fh-instance.md
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title: How to upload your study into the Fred Hutch instance of cBioPortal
last_modified_at: 2025-04-18
main_authors: sitapriyamoorthi
primary_reviewers: tfirman, laderast
---
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1 change: 0 additions & 1 deletion _pathways/path-interactive.md
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title: Getting and Using Interactive Sessions
last_modified_at: 2024-05-29
primary_reviewers: atombaby
---

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1 change: 0 additions & 1 deletion _scicomputing/access_overview.md
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title: Computing Access Overview
last_modified_at: 2019-09-05
primary_reviewers: vortexing
---
This overview describes what types of credentials are needed for [various Fred Hutch computing resources](/compdemos/) and provides instructions for accessing those supported computing resources.
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1 change: 0 additions & 1 deletion _scicomputing/access_permissions.md
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title: Permissions
last_modified_at: 2019-09-05
primary_reviewers:
---

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1 change: 0 additions & 1 deletion _scicomputing/comp_index.md
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title: Overview of Scientific Computing at Fred Hutch
last_modified_at: 2019-05-30
primary_reviewers: vortexing
---
Various groups support computational capacity at the Hutch. Center IT supports general computing tasks, such as email and desktop computer software; further information can be found on the Center IT pages in Centernet. This section of the Wiki represents information relating to research and scientific computing, which generally require additional software, hardware, and skills. If you have questions that aren't answered here, please email `SciComp` or ask a public question on [The Fred Hutch Data Community Slack Workspace](https://fhdata.slack.com) in the `question-and-answer` channel.
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1 change: 0 additions & 1 deletion _scicomputing/compute_accounts.md
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title: Cluster Accounts
last_modified_at: 2021-02-09
primary_reviewer: atombaby
---

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1 change: 0 additions & 1 deletion _scicomputing/compute_environments.md
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title: Computing Environments and Containers
last_modified_at: 2025-11-11
primary_reviewers: bmcgough
---

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3 changes: 1 addition & 2 deletions _scicomputing/compute_gpu.md
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title: Computing with GPUs
last_modified_at: 2023-03-31
primary_reviewer: atombaby
---

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## Using GPUs

When your job is assigned a GPU, Slurm sets the environment variable CUDA_VISIBLE_DEVICES. This environment variable indicates the assigned GPU- most CUDA tools (e.g. tensorflow) use this to restrict execution to that device.
When your job is assigned a GPU, Slurm sets the environment variable CUDA_VISIBLE_DEVICES. This environment variable indicates the assigned GPU- most CUDA tools (e.g. tensorflow) use this to restrict execution to that device.
1 change: 0 additions & 1 deletion _scicomputing/compute_job_scheduling.md
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title: Gizmo Job Scheduling
last_modified_at: 2021-02-09
primary_reviewer: atombaby
---

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1 change: 0 additions & 1 deletion _scicomputing/compute_parallel.md
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title: Parallel Computing on Slurm Clusters
last_modified_at: 2019-05-02
primary_reviewer: atombaby
---

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1 change: 0 additions & 1 deletion _scicomputing/hutchgo_guest_collection.md
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title: Creating Guest Collections in HutchGO
last_modified_at: 2024-07-01
primary_reviewers: atombaby
---

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1 change: 0 additions & 1 deletion _scicomputing/hutchgo_overview.md
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title: Hutch Globus Online - HutchGO
last_modified_at: 2024-08-16
primary_reviewers: atombaby
---

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1 change: 0 additions & 1 deletion _scicomputing/reference_training.md
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title: Training, Community and Finding Help
last_modified_at: 2020-06-02
primary_reviewers: k8hertweck, vortexing
---
There are a variety of resources for training on various aspects of bioinformatics, analytics and data skills available at the Fred Hutch, in the Seattle area and on the web.
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1 change: 0 additions & 1 deletion _scicomputing/store_databases.md
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title: Data Storage in Databases
last_modified_at: 2018-04-01
primary_reviewers: vortexing
---

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1 change: 0 additions & 1 deletion _scicomputing/store_overview.md
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title: Overview of Data Storage at Fred Hutch
last_modified_at: 2023-03-24
primary_reviewers:
---

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1 change: 0 additions & 1 deletion contributorTemplate.md
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title: Your Name
last_modified_at: 2018-06-06
---
## Affiliation
Clinical Research Division
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