Pull request

[tomthescientist3001]

Hello David,

I am trying to put the homework on the pull request but i cannot do it. I did not see the homework before and I think i missed the deadline if there was one. Please, can it be open for one more day?

homework

Problem 1
— Based on the PeacoQC package documentation (version 1.20.0), the package contains 5 main functions:
1. PeacoQC()
2. PeacoQCHeatmap()
3. PlotPeacoQC()
4. RemoveDoublets()
5. RemoveMargins()

Problem 2
— There are currently 69 packages under FlowCytometry, the most author/maintainer is Givanna Putri with the package "SuperCellCyto".

Problem 3
— Installation Method 1: we need different commands for different sources:
- install.packages() for CRAN packages
- BiocManager::install() for Bioconductor packages
- remotes::install_github() for GitHub packages

— Installation Method 1(with pak): one command pak::pkg_install() works for all packages, no matter where they come from. It automatically figures out if a package is from CRAN, Bioconductor, or GitHub. However, dependencies were tricky because I needed to find the correct GitHub addresses, which could slow down the process.

I did not understand why there were "pull requests". I am so sorry i missed it!

Tomas De La Fuente Marques

[DavidRach]

Hi @tomthescientist3001, there are no deadlines for submitting the optional take-homes, so no worries, and no rush 😃 Best- David

[DavidRach]

Process for turning it in via a pull request to the homework branch is detailed here

[tomthescientist3001]

I will follow the instructions then. Thanks David 😃

[MacarenaLM]

Hello David,
I'm following the updated pull request protocol for the homeworks and at some point says : "Once you have confirmed you are in your homework branch, go ahead and transfer in all the files you will be submitting for the optional take-home problems" How can I do that? I don't know how to transfer those files to the new branch. Many thanks in advance!
Regards,
M.

[MacarenaLM]

OK, I've been reading and apparently, there's nothing to copy if I create the branch before to do changes in the homeworks, because the new branch is like a mirror and everything is already in the new branch. Thanks again for this amazing course!
Regards,
M.

[DavidRach]

Hey @MacarenaLM, thanks for flagging it, I will update that section for further clarity. Yeah, if you already had them present, the mirror would have them as well. If you branched before creating your homework folder, it would be empty, at which point you could copy them in. Both should work (as long as everything is kept in your folder within homeworks to avoid any merge issues). Best- David