RT Journal Article
SR Electronic
T1 BlackSheep: A Bioconductor and Bioconda package for differential extreme value analysis
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 825067
DO 10.1101/825067
A1 Blumenberg, Lili
A1 Kawaler, Emily
A1 Cornwell, MacIntosh
A1 Smith, Shaleigh
A1 Ruggles, Kelly
A1 Fenyö, David
YR 2019
UL http://biorxiv.org/content/early/2019/11/11/825067.abstract
AB Unbiased assays such as shotgun proteomics and RNA-seq provide high-resolution molecular characterization of tumors. These assays measure molecules with highly varied distributions, making interpretation and hypothesis testing challenging. Samples with the most extreme measurements for a molecule can reveal the most interesting biological insights, yet are often excluded from analysis. Furthermore, rare disease subtypes are, by definition, underrepresented in cancer cohorts. To provide a strategy for identifying molecules aberrantly enriched in small sample cohorts, we present BlackSheep--a package for non-parametric description and differential analysis of genome-wide data, available at https://github.com/ruggleslab/blackSheep. BlackSheep is a complementary tool to other differential expression analysis methods that may be underpowered when analyzing small subgroups in a larger cohort.