From 2dd0c0663dbb2eb10cf5654e67a1a56959ab6c72 Mon Sep 17 00:00:00 2001 From: Rayna M Harris Date: Tue, 2 Aug 2022 13:13:16 -0700 Subject: [PATCH 1/3] add more history --- docs/Release-Notes/history.md | 62 +++++++++++++++++++++++------------ 1 file changed, 41 insertions(+), 21 deletions(-) diff --git a/docs/Release-Notes/history.md b/docs/Release-Notes/history.md index 5ff5ed607..7584e2510 100644 --- a/docs/Release-Notes/history.md +++ b/docs/Release-Notes/history.md @@ -5,27 +5,58 @@ title: Workshop History -# Workshop History +# Training History -Below is a list of past CFDE workshops with links to workshop resources. +Below is a list of past workshops and other training events with links to resources and videos. -## 2022 +## Demonstrations -* [Introduction to R for RNA Sequencing Analysis](https://hackmd.io/MsWY1O9GQXGVDl2OmV2jxg) _May 11, 2022_ [](https://video.ucdavis.edu/media/CFDE+May+Hackathon+-+Intro+to+R+for+RNA-Seq/1_61sjku7o) -* [CFDE Portal Demo with HMP Data, AWS, and sourmash](https://hackmd.io/dW9EoOh3T42eed9q21NLJQ?view#) _May 10, 2022_ [](https://video.ucdavis.edu/media/t/1_yze086oo) -* [Introduction to R for RNA Sequencing Analysis](https://hackmd.io/SnorsWTbTTyRenptpjrhww?view) _April 27, 2022_ -* [Introduction to R for RNA Sequencing Analysis](https://hackmd.io/2ArmQGwGT0uUyL5Ehqy0hQ) _March 23, 2022_   -* [RNA-Seq in the Cloud](https://osf.io/txcw8/) _March 7 and 9, 2022_   +* Overview of the CFDE Search Portal - 5 min. [](https://www.youtube.com/watch?v=0ZBvVIQHbXU) +* Submitting data to the CFDE Search Portal - 5 min [](https://www.loom.com/share/9a51c13e443740a3905db51679288378) + +## Hackathons + +_[May Hackathon Playlist (requires UC Davis login)](https://video.ucdavis.edu/channel/Common+Fund+Data+Ecosystem+%28CFDE%29+May+2022+Hackathon/259945432)_ + +* Exploring SPARC Data on Organ-nervous System Connectivity _May 11, 2022_ [](https://video.ucdavis.edu/media/CFDE+May+Hackathon+-+SPARC+Exploration/1_vt6hfw62/259945432) +* [Introduction to R for RNA Sequencing Analysis with GTEx data](https://hackmd.io/MsWY1O9GQXGVDl2OmV2jxg) _May 11, 2022_ [](https://video.ucdavis.edu/media/CFDE+May+Hackathon+-+Intro+to+R+for+RNA-Seq/1_61sjku7o) +* Knowledge Graph to Access and Analyze Common Fund Data from KidsFirst and HuBMAP _May 10, 2022_ [](https://video.ucdavis.edu/media/CFDE+May+Hackathon+-+Knowledge+Graph/1_blpnnnz8/259945432) +* [iHMP Data Exploration with AWS and sourmash](https://hackmd.io/dW9EoOh3T42eed9q21NLJQ?view#) _May 10, 2022_ [](https://video.ucdavis.edu/media/t/1_yze086oo) +* [CFDE Portal Demo](https://app.nih-cfde.org/) _May 9, 2022_ [](https://video.ucdavis.edu/media/CFDE+May+Hackathon+-+Portal+Demo/1_isfmcnh8/259945432) * [Introduction SigCom LINCS Search Engine](https://nih-cfde.github.io/2022-feb-hackathon/about/) _February 24, 2022_ * [Extracellular RNA Communication (exRNA)](https://nih-cfde.github.io/2022-feb-hackathon/about/) _February 23, 2022_ * [Introduction to to the Metabolomics Workbench](https://nih-cfde.github.io/2022-feb-hackathon/about/) _February 22, 2022_ * [Introduction to AWS with Human Microbiome Project (HMP) Data](https://hackmd.io/9EWhx5vYR3SDmd1Nl9rpyQ?view) _February 22, 2022_ [](https://video.ucdavis.edu/media/Hackathon+-+Day+2+-+HMP/1_evaoqlpg) * [CFDE Portal Demo](https://app.nih-cfde.org/) _February 21, 2022_ [](https://video.ucdavis.edu/media/Hackathon+-+Day+1+-+Portal+Demo/1_cr0ert97) + +## August Compute Series + +* [Introduction to AWS for Cloud Computing](https://ngs-docs.github.io/2021-august-remote-computing/making-use-of-on-demand-cloud-computers-from-amazon-web-services.html) _August 31, 2021_   +* [Using SLURM on HPC](https://ngs-docs.github.io/2021-august-remote-computing/executing-large-analyses-on-hpc-clusters-with-slurm.html) _August 26, 2021_ +* [Automating using Snakemake](https://ngs-docs.github.io/2021-august-remote-computing/automating-your-analyses-with-the-snakemake-workflow-system.html) _August 25, 2021_ +* [Using Version Control](https://ngs-docs.github.io/2021-august-remote-computing/keeping-track-of-your-files-with-version-control.html) _August 24, 2021_ +* [Automating Analyses](https://ngs-docs.github.io/2021-august-remote-computing/automating-your-analyses-and-executing-long-running-analyses-on-remote-computers.html) _August 19, 2021_   +* [Structuring Project Folders](https://ngs-docs.github.io/2021-august-remote-computing/structuring-your-projects-for-current-and-future-you.html) _August 17, 2021_   +* [Installing Software with Conda](https://ngs-docs.github.io/2021-august-remote-computing/installing-software-on-remote-computers-with-conda.html) _August 13, 2021_ +* [Running Programs and Retrieving Results](https://ngs-docs.github.io/2021-august-remote-computing/running-programs-on-remote-computers-and-retrieving-the-results.html) _August 12, 2021_   +* [Connecting Remote Computers with SSH](https://ngs-docs.github.io/2021-august-remote-computing/connecting-to-remote-computers-with-ssh.html) _August 10, 2021_ +* [Creating & Modifying Text Files](https://ngs-docs.github.io/2021-august-remote-computing/creating-and-modifying-text-files-on-remote-computers.html) _August 4, 2021_  +* [Introduction to UNIX Command Line](https://ngs-docs.github.io/2021-august-remote-computing/introduction-to-the-unix-command-line.html) _August 3, 2021_ + +## Wednesday Workshops + +_[Workshop Playlist (requires UC Davis login)](https://video.ucdavis.edu/channel/Common+Fund+Data+Ecosystem+%28CFDE%29+Training+Videos/184508093)_ + +### 2022 + +* [Introduction to R for RNA Sequencing Analysis](https://hackmd.io/SnorsWTbTTyRenptpjrhww?view) _April 27, 2022_ +* [Introduction to R for RNA Sequencing Analysis](https://hackmd.io/2ArmQGwGT0uUyL5Ehqy0hQ) _March 23, 2022_   +* [RNA-Seq in the Cloud](https://osf.io/txcw8/) _March 7 and 9, 2022_   * [RNA-Seq Concepts, Design and Workflows](https://osf.io/kj5av/) _February 15, 2022_ * [Introduction to AWS for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-on-Introduction-to-AWS-for-Cloud-Computing-January-26,-2022) _January 26, 2022_ * [Introduction to UNIX for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/An-Introduction-to-UNIX-for-Remote-Computing:-January-19,-2022) _January 19, 2022_     -## 2021 +### 2021 * [An Introduction to AWS for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-On-Introduction-to-AWS:-December-15,-2021) _December 15, 2021_ * [An Introduction to UNIX for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/An-Introduction-to-UNIX-for-Cloud-Computing---December-8,-2021) _December 8, 2021_ @@ -35,17 +66,6 @@ Below is a list of past CFDE workshops with links to workshop resources. * [Introduction to Conda](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-On-Introduction-to-Conda:-October-6,-2021) _October 6, 2021_   * [RNA-Seq in the Cloud](https://github.com/nih-cfde/training-and-engagement/wiki/RNA-Seq-in-the-cloud:-June-21-&-23,-2021) _September 21 & 23, 2021_ * [RNA-Seq Concepts, Design and Workflows](https://osf.io/txcw8/) _September 22, 2021_   -* [Introduction to AWS for Cloud Computing](https://ngs-docs.github.io/2021-august-remote-computing/making-use-of-on-demand-cloud-computers-from-amazon-web-services.html) _August 31, 2021_   -* [Using SLURM on HPC](https://ngs-docs.github.io/2021-august-remote-computing/executing-large-analyses-on-hpc-clusters-with-slurm.html) _August 26, 2021_   -* [Automating using Snakemake](https://ngs-docs.github.io/2021-august-remote-computing/automating-your-analyses-with-the-snakemake-workflow-system.html) _August 25, 2021_ -* [Using Version Control](https://ngs-docs.github.io/2021-august-remote-computing/keeping-track-of-your-files-with-version-control.html) _August 24, 2021_ -* [Automating Analyses](https://ngs-docs.github.io/2021-august-remote-computing/automating-your-analyses-and-executing-long-running-analyses-on-remote-computers.html) _August 19, 2021_   -* [Structuring Project Folders](https://ngs-docs.github.io/2021-august-remote-computing/structuring-your-projects-for-current-and-future-you.html) _August 17, 2021_   -* [Installing Software with Conda](https://ngs-docs.github.io/2021-august-remote-computing/installing-software-on-remote-computers-with-conda.html) _August 13, 2021_ -* [Running Programs and Retrieving Results](https://ngs-docs.github.io/2021-august-remote-computing/running-programs-on-remote-computers-and-retrieving-the-results.html) _August 12, 2021_   -* [Connecting Remote Computers with SSH](https://ngs-docs.github.io/2021-august-remote-computing/connecting-to-remote-computers-with-ssh.html) _August 10, 2021_ -* [Creating & Modifying Text Files](https://ngs-docs.github.io/2021-august-remote-computing/creating-and-modifying-text-files-on-remote-computers.html) _August 4, 2021_  -* [Introduction to UNIX Command Line](https://ngs-docs.github.io/2021-august-remote-computing/introduction-to-the-unix-command-line.html) _August 3, 2021_   * [Introduction to R](https://github.com/nih-cfde/training-and-engagement/wiki/Introduction-to-R:-July-28,-2021) _July 28, 2021_   * [RNA-Seq Concepts, Design and Workflows](https://osf.io/txcw8/) _July 21, 2021_   * [A Hands-On Introduction to Conda](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-On-Introduction-to-Conda:-July-14,-2021) _July 14, 2021_ @@ -67,7 +87,7 @@ Below is a list of past CFDE workshops with links to workshop resources. * [Introduction to AWS for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-On-Introduction-to-AWS:-February-25,-2021) _Feb 25, 2021_ * [Introduction to AWS for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-On-Introduction-to-AWS:-January-29,-2021) _Jan 29, 2021_ -## 2020 +### 2020 * [Introduction to the Kids First Data Resource Portal](https://training.nih-cfde.org/en/latest/Common-Fund-Tools/Kids-First/) _Dec 17, 2020_ * [Introduction to AWS for Cloud Computing](https://github.com/nih-cfde/training-and-engagement/wiki/A-Hands-On-Introduction-to-AWS:-December-1,-2020) _Dec 1, 2020_  From 4d990c8d530a77daf14550cbd43bde1d2bd7fb98 Mon Sep 17 00:00:00 2001 From: Rayna M Harris Date: Fri, 28 Apr 2023 10:26:03 -0700 Subject: [PATCH 2/3] fix broken link --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 4f4d5a0db..e4077efcc 100644 --- a/README.md +++ b/README.md @@ -20,7 +20,7 @@ A list of past workshops can be viewed [here](https://github.com/nih-cfde/traini ## Contributing -Hello, if you would like to contribute to the CFDE Training website, please read the [Contributing Guidelines](CONTRIBUTING.md) and the [Website Style Guide](https://training.nih-cfde.org/en/latest/Website-Style-Guide/). +Hello, if you would like to contribute to the CFDE Training website, please read the [Contributing Guidelines](CONTRIBUTING.md) and the [Website Style Guide](https://training.nih-cfde.org/en/latest/Website-Style-Guide/7ReleasePlan/). By contributing to this repository, you agree to release all your contributions under the same terms as the license itself: [the Creative Commons Zero (aka Public Domain) license](LICENSE.md). If you are OK with this condition, then we welcome both you and your contribution! From fcecc43945d09a3c8061654fed01164ff8cbc23b Mon Sep 17 00:00:00 2001 From: Rayna M Harris Date: Fri, 28 Apr 2023 10:37:06 -0700 Subject: [PATCH 3/3] for real fixed a a broken link --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index e4077efcc..57806e0da 100644 --- a/README.md +++ b/README.md @@ -2,7 +2,7 @@ The `stable` branch of this repository builds the public training materials for the CFDE at https://training.nih-cfde.org. The `dev` branch contains updates that will be merged as part of the next [release](https://github.com/nih-cfde/training-and-engagement/blob/dev/docs/TrainingRepoReleasePlan/TrainingRepo-Release-Plan.md). -The training website hosts tutorials and resources to learn how to perform bioinformatic analyses and access data. The GitHub repository contains CFDE internal resources, including the [website style guide](https://training.nih-cfde.org/en/latest/Website-Style-Guide) and [website release protocol](./docs/TrainingRepoReleasePlan/TrainingRepo-Release-Plan.md). +The training website hosts tutorials and resources to learn how to perform bioinformatic analyses and access data. The GitHub repository contains CFDE internal resources, including the [website style guide](https://training.nih-cfde.org/en/latest/Website-Style-Guide) and [website release protocol](https://training.nih-cfde.org/en/latest/Website-Style-Guide/7ReleasePlan/). Check out our [wiki pages](https://github.com/nih-cfde/training-and-engagement/wiki) for past workshop notes, mini tutorials on setup, and workshop attendee resources (i.e., for managing screen space). @@ -20,7 +20,7 @@ A list of past workshops can be viewed [here](https://github.com/nih-cfde/traini ## Contributing -Hello, if you would like to contribute to the CFDE Training website, please read the [Contributing Guidelines](CONTRIBUTING.md) and the [Website Style Guide](https://training.nih-cfde.org/en/latest/Website-Style-Guide/7ReleasePlan/). +Hello, if you would like to contribute to the CFDE Training website, please read the [Contributing Guidelines](CONTRIBUTING.md) and the [Website Style Guide](https://training.nih-cfde.org/en/latest/Website-Style-Guide/). By contributing to this repository, you agree to release all your contributions under the same terms as the license itself: [the Creative Commons Zero (aka Public Domain) license](LICENSE.md). If you are OK with this condition, then we welcome both you and your contribution!