CoreAlg: CIBERSORT R script v1.03 (last updated 07-10-2015) Note:...
In singha53/amritr: Accessory Functions Used by Amrit Singh

Usage: Navigate to directory containing R script

1	CoreAlg(X, y)

`X`	cell-specific gene expression
`y`	mixed expression per sample

In R: source('CIBERSORT.R') results <- CIBERSORT('sig_matrix_file.txt','mixture_file.txt', perm, QN)

Options: i) perm = No. permutations; set to >=100 to calculate p-values (default = 0) ii) QN = Quantile normalization of input mixture (default = TRUE)

Input: signature matrix and mixture file, formatted as specified at http://cibersort.stanford.edu/tutorial.php Output: matrix object containing all results and tabular data written to disk 'CIBERSORT-Results.txt' License: http://cibersort.stanford.edu/CIBERSORT_License.txt Core algorithm

singha53/amritr documentation built on July 21, 2019, 3:46 p.m.