recount3
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LieberInstitute
Explore and download data from the recount3 project
We want to use `rlang` and `cli` to improve the user experience. See https://lcolladotor.github.io/jhustatcomputing2023/posts/18-debugging-r-code/#errors-%C3%A0-la-tidyverse for a quick intro into how these functions improve error messages.
This is a recurrent goal as new data is deposited nearly every day to the Sequence Read Archive. - [ ] To add more data to `recount3`, we first need...
Translate to Spanish the short workshop #47 and other intro level materials to help increase access to these technologies to Spanish-speaking individuals. This will help increase diversity of our user...
We want to create a collection of short videos (likely shared on YouTube) demonstrating how to use the different features of the `recount3`. We will collate these videos into a...
Similar to https://github.com/LieberInstitute/spatialLIBD/issues/68 Develop a long format workshop to teach in 2 days (max 3) the basics of bulk RNA-seq data analysis using data from `recount3`. This would build upon...
The GTEx and TCGA datasets are some of the most used datasets. With the potential reduced memory usage via #11, it might become feasible to have user guides (vignettes) that...
We want to revise and update the current documentation. In particular, users frequently ask how to best transform the `raw_counts`. We plan to split the current documentation into multiple guides...
We want to write a user guide (vignette) documenting how users can create their own collections (similar to the `recount-brain` one), test them locally, and potentially share them. As part...
`recount3` supports collections, which are samples from multiple studies with extra custom metadata. We want to make `recount-brain` collection (described at https://doi.org/10.1101/618025) available via `recount3`. Doing so will enable us...
Related to #41, we want to upload all the data available at IDIES and also at AWS Open Data Sponsorship Program https://aws.amazon.com/marketplace/pp/prodview-t3rflz3f557jq#resources to AnVIL https://anvilproject.org/. We might have to re-organize...
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Explore and download data from the recount3 project