raw_variation: Calculate unnormalized cell-to-cell variation in chromatin...
In stanleycai123/PRISM: Cell-to-cell variation in chromatin accessibility
Description
Usage
Arguments
Examples
Description
Calculates unnormalized cell-to-cell variation in chromatin accessibility using angular cosine distance inputted into principal coordinate analysis. Then each cell's distance from the centroid comprises the accessibility variation. Technical biases associated with GC content and mean accessibility are controlled for.
Usage
1
raw_variation(scATACseq_experiment, ChIPseq_experiment)
Arguments
scATACseq_experiment
A SummarizedExperiment containing scATACseq data.
ChIPseq_experiment
A matrix containing ChIPseq data for matching DNA sequences.
Examples
1
stanleycai123/PRISM documentation built on May 5, 2019, 12:33 p.m.
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Description Usage Arguments Examples
Description
Calculates unnormalized cell-to-cell variation in chromatin accessibility using angular cosine distance inputted into principal coordinate analysis. Then each cell's distance from the centroid comprises the accessibility variation. Technical biases associated with GC content and mean accessibility are controlled for.
Usage
1 | raw_variation(scATACseq_experiment, ChIPseq_experiment)
|
Arguments
scATACseq_experiment |
A SummarizedExperiment containing scATACseq data. |
ChIPseq_experiment |
A matrix containing ChIPseq data for matching DNA sequences. |
Examples
1 |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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