compute_camera: Compute Camera

In EmanuelSoda/ScreenR: Package to Perform High Throughput Biological Screening

Compute Camera

Description

This internal function computes the actual hits using the camera method.

Usage

compute_camera(
  xglm,
  lrt,
  DGEList,
  matrix_model,
  contrast,
  number_barcode = 3,
  thresh = 1e-04,
  lfc = 1
)

Arguments

xglm	object created with estimateDisp
lrt	object created with glmFit
DGEList	edgeR object
...	Arguments passed on to find_camera_hit matrix_model The matrix that will be used to perform the linear model analysis created using model.matrix thresh The threshold for the False Discovery Rate (FDR) that has to be used to select the statistically significant hits. lfc The Log2FC threshold. number_barcode Number of barcode that as to be differentially expressed (DE)in order to consider the gene associated DE. Example a gene is associated with 10 shRNA we consider a gene DE if it has at least number_barcode = 5 shRNA DE.

Value

The list of hits found by the camera method

EmanuelSoda/ScreenR documentation built on Sept. 29, 2023, 12:33 a.m.