README.Rmd

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## [`ondisc`]{style="font-size:60px;"}

Single-cell datasets are growing in size, posing challenges as well as opportunities for genomics researchers. `ondisc` is an R package that facilitates analysis of large-scale single-cell data out-of-core on a laptop or distributed across tens to hundreds processors on a cluster or cloud. In both of these settings, `ondisc` requires only a few gigabytes of memory, even if the input data are tens of gigabytes in size. `ondisc` mainly is oriented toward single-cell CRISPR screen analysis, but ondisc also can be used for single-cell differential expression and single-cell co-expression analyses. `ondisc` is powered by several new, efficient algorithms for manipulating and querying large, sparse expression matrices. 

`ondisc` is a companion package to [`sceptre`](https://katsevich-lab.github.io/sceptre/), an R package for statistically rigorous and user-friendly single-cell CRISPR screen analysis. Although `ondisc` and `sceptre` work best in conjunction, `ondisc` can be used independently of `sceptre` (and conversely, `sceptre` can be used independently of `ondisc`). Users can submit issues on the `ondisc` [Github page](https://github.com/timothy-barry/ondisc/issues).