MCA

[aopisco]

Thank you for contributing to easy-data! Please make sure your markdown file explaining the dataset has the following:

• [ ] a description of the dataset including a link to the appropriate publication or reference.
• [ ] direct links to download the count matrix (in the form of an easy-to-load file, like a rds file containing an sparse matrix for R and an AnnData hdf5 file or a mtx file for python).
• [ ] direct links to download the metadata (in a csv with rows indexed by cell names).
• [ ] sample loading code for R and python.

[jacksonloper]

I am an idiot, but what is the difference between

https://github.com/czi-hca-comp-tools/easy-data/blob/master/datasets/tabula_muris.md

and

https://github.com/czi-hca-comp-tools/easy-data/blob/master/datasets/mouse-cell-atlas/MCA.md

They both have the same count matrices, I assume. The point is that Guo has provided a new kind of metadata?

[aopisco]

Hi Jackson,

the count matrices are definitely not the same. The Tabula muris was created at the CZ Biohub ( https://www.biorxiv.org/content/early/2018/03/29/237446) and the MCA is the data behind Mouse Cell Atlas microwell-seq publication (Guo's lab, Cell 2018). I hope this makes sense to you, but if not please reach out again.

Best, Angela

On Mon, 7 May 2018 at 13:24, Jackson Loper notifications@github.com wrote:

I am an idiot, but what is the difference between

https://github.com/czi-hca-comp-tools/easy-data/blob/master/datasets/tabula_muris.md

and

https://github.com/czi-hca-comp-tools/easy-data/blob/master/datasets/mouse-cell-atlas/MCA.md

They both have the same count matrices, I assume. The point is that Guo has provided a new kind of metadata?

— You are receiving this because you modified the open/close state. Reply to this email directly, view it on GitHub https://github.com/czi-hca-comp-tools/easy-data/pull/26#issuecomment-387193405, or mute the thread https://github.com/notifications/unsubscribe-auth/AYtLp4DNhyJMhgsbS0SX6ZHOgomb6OuDks5twK1lgaJpZM4Tv-fN .

[jacksonloper]

Ahhah. But the first link on datasets/mouse-cell-atlas/MCA.md is to czbiohub. So is that at typo?

+# MCA (mouse cell atlas)
 +
 +[MCA](http://tabula-muris.ds.czbiohub.org/) contains about 300,000 cells from major mouse organs sequenced using the microwell-seq platform.

[aopisco]

Thanks a lot for spotting this - the problem of copy pasting... sorry about that! Just created a PR for you to review! It's great you're really reviewing this! Well done!

On Mon, 7 May 2018 at 13:38, Jackson Loper notifications@github.com wrote:

Ahhah. But the first link on datasets/mouse-cell-atlas/MCA.md is to czbiohub. So is that at typo?

+# MCA (mouse cell atlas) + +MCA contains about 300,000 cells from major mouse organs sequenced using the microwell-seq platform.

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