hbctraining / scRNA-seq_online

https://hbctraining.github.io/scRNA-seq_online/.
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Matrix.utils package (used in pseudobulk DEA lesson) is archived from CRAN #101

Open Amelie-TGHN opened 1 year ago

Amelie-TGHN commented 1 year ago

The following tutorial describing how to prepare single-cell data for pseudobulk differential expression analysis (DEA) relies on the use of Matrix.utils::aggregate.Matrix() to aggregate the single-cell data by sample/cell type.

However, the package Matrix.utils is now archived from CRAN, as it seems that issues with build tests in v0.98 were not addressed by package developers. As documented elsewhere and until an alternative is found, we recommend proceeding with caution and installing the previous version of Matrix.utils using the following:

devtools::install_url("https://cran.r-project.org/src/contrib/Archive/Matrix.utils/Matrix.utils_0.9.7.tar.gz")