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expdesign2021's Introduction

ExpDesign2021

Build Status codecov

How to get started

If you're using a Mac, you may need to install Xquartz; do so before proceeding.

Then pull up Rstudio or (if you're a caveman like me) R, and do the following:

install.packages("remotes")
install.packages("BiocManager")
BiocManager::install("VanAndelInstitute/ExpDesign2021")

If you're asked which CRAN mirror to use, I suggest number (1), cloud.r-project.org.

If BiocManager::install() asks you which packages to update, I suggest (2), CRAN packages only.

If you have further issues with packages, you can try install.packages("offending_package_name") and see if that fixes the problem. If that doesn't work, and you're on a Mac, you may have to install some software to compile source code; more details here. I strongly suggest that you avoid compiling your own packages unless you are writing packages (and even then, only if you must).

If all goes well, you'll see something like this:

installed

If you still have issues, grab the output of sessionInfo() and file a bug (use the Issues tab for this repository and send an email.)

sessionInfo

For developers

The repository includes a Makefile to facilitate some common tasks.

Running tests

$ make test. Requires the testthat package. You can also specify a specific test file or files to run by adding a "file=" argument, like $ make test file=logging. test_package will do a regular-expression pattern match within the file names. See its documentation in the testthat package.

Updating documentation

$ make doc. Requires the roxygen2 package.

expdesign2021's People

Contributors

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Stargazers

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Watchers

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expdesign2021's Issues

Matrix File

I'm getting an error when I try to run this chunk.

library(Matrix)
umi_counts <- as(readMM("matrix.mtx.gz"), "dgCMatrix")

I can't find where in the markdown to download the Matrix file.

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