| Hackathon | Participant(s) | Title | Language | Vignette | Additional info |
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| scNMTseq | Al J Abadi |  Multi-block PLS |
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| scNMTseq | Wancen Mu and Michael Love | CV-MOFA |
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| scNMTseq | Josh Welch | LIGER analysis of scNMT-seq |
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| scNMTseq | Arshi Arora | MOSAIC analysis of scNMT-seq |
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| scProteomics | Lauren Hsu | Exploratory analyses |
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| scProteomics | Chen Meng | Predicting partially overlapping data |
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| scProteomics | Pratheepa Jeganathan | Latent Dirichlet Allocation |
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| scProteomics | Yingxin Lin | Integrative analysis of breast cancer survival based on spatial features |
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| scSpatial | Alexis Coullomb | Neighbours Aggregtion |
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| scSpatial | Joshua Sodicoff | Utilizing LIGER for the integration of spatial transcriptomic data |
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| scSpatial | Dario Righelli | SpatialExperiment Analysis |
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| scSpatial | Amrit Singh | seqFISH+scRNASeq integration using semi-supervised glmnet |
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| scSpatial | Hang Xu | Cortex seq-FISH + scRNA data - gene selection |
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| scSpatial | Yuzhou Feng | sPLS-DA and MINT models for cell type prediction and gene selection |
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0️⃣ Choose a name for your package. Recommended convention: {hackathon_event}.{theme}.{method/topic}. e.g. BIRSBIO2020.scNMTseq.Benchmarking, BIRSBIO2020.scProteomics.LatentDirichlet. Ensure that you also have a Docker account for automatic containerization as well.
1️⃣ Use https://github.com/seandavi/BuildABiocWorkshop2020 as template for your analysis package. You can simply click here to accomplish this. Make it public and include all branches (to keep master & gh-pages, you can delete the rest).
❗ For python notebooks also see https://github.com/fastai/fastpages
2️⃣ Follow the steps outlined here to set up your own workflow and create a package from your analyses. The notebooks should go in ./vignettes folder and source files in ./R (or simply include them in notebooks). Include all dependencies in DESCRIPTION and ensure it can be installed, Ensure devtools::build_vignettes() can successfully create the vignettes locally before testing using GitHub Actions.
💡 If you use R and have python dependencies, this setup should help as an example.
💡 The docker image name should only include lowercase letters, integers, _ and -.
💡 Follow this article to add Docker credentials to GitHub Secrets.
3️⃣ Push and ensure the workflow deploys successfully using GitHub Actions (https://github.com/YOUR_GITHUB_USER/REPO/actions)
4️⃣ Add the relevant links and details to the table above through a pull request
5️⃣ Please update these steps through a PR if required