Description Usage Arguments Value Author(s) References
Computes the constrast between groups for the deconvolved cell-specific expression for each cell-type
1 2 |
ghat1 |
Expression matrix of deconvolved cell-specific gene expression estimates for group 1. |
se1 |
Standard error group 1 |
n1 |
Group 1 size |
ghat2 |
Expression matrix of deconvolved cell-specific gene expression estimates for group 2. |
se2 |
Standard error group 2 |
n2 |
Group 2 size |
standardize |
Standardize contrast values |
medianCenter |
Median center rhat distributions for each cell-type |
nonNeg |
Negative values not allowed such as in a single channel microarray. Zero them if negative (a conervative option) |
A matrix object with the result of contrasting the average cell-specific expression profile of the two groups, per cell-type (Size k by g where k is the number of cells and g is the number of genes).
Shai Shen-Orr, Rob Tibshirani, Narasimhan Balasubramanian, David Wang
Shen-Orr SS, Tibshirani R, Khatri P, Bodian DL, Staedtler F, Perry NM, Hastie T, Sarwal MM, Davis MM and Butte AJ (2010). "Cell type-specific gene expression differences in complex tissues." _Nature methods_, *7*(4), pp. 287-9. ISSN 1548-7105, <URL: http://dx.doi.org/10.1038/nmeth.1439>, <URL: http://www.ncbi.nlm.nih.gov/pubmed/20208531>.
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