CNVMetrics-package: CNVMetrics: Copy number variant metrics

In KrasnitzLab/CNVMetrics: Copy Number Variant Metrics

CNVMetrics: Copy number variant metrics

Description

The CNVMetrics package calculates similarity metrics to facilitate copy number variant comparison among samples and/or methods. Similarity metrics can be employed to compare CNV profiles of genetically unrelated samples as well as those with a common genetic background. Some metrics are based on the shared amplified/deleted regions while other metrics rely on the level of amplification/deletion. The data type used as input is a plain text file containing the genomic position of the copy number variations, as well as the status and/or the log2 ratio values. Finally, a visualization tool is provided to explore resulting metrics.

Author(s)

Astrid Deschênes, Pascal Belleau, David A. Tuveson and Alexander Krasnitz

Maintainer: Astrid Deschênes <[e-mail]>

See Also

• calculateOverlapMetric for calculating metric using overlapping amplified/deleted regions

• calculateLog2ratioMetric for calculating metric using log2ratio values

• processSim for generating simulations

• plotMetric for plotting metrics

KrasnitzLab/CNVMetrics documentation built on July 30, 2023, 2:22 p.m.