build_data_for_dewarping: Create data for Bayesian 2D dewarping

In oslerinhealth/spotgear: Subset Profiling and Organizing Tools for Gel Electrophoresis Autoradiography in R

Description

Construct data frame that store all detected bands (NB: the result can be trimmed to exclude specific rows.)

Usage

build_data_for_dewarping(score_mat_list, analysis_id, rf_grid, N_g_vec)

Arguments

score_mat_list	A list of matrices. Each matrxi has B rows and N_g columns. NA means non-peaks, a number, usually 3, represents peaks.
analysis_id	choose the gels in this analysis; user's choice.
rf_grid	A vector of length B (=670) equal-spaced grid from 0 to 1.
N_g_vec	A named numeric vector showing the number of lanes (incl. Lane 1s) for each gel with the name being the original ID before being subset by analysis_id.

Value

A data frame comprised of 5 elements:

• gel_ID

• lane_ID

• band_ID

• Y Location on Gel for the peaks

• peak_bin_index The bin index for the peaks

• lane_ID_stacked cumulative counts.

oslerinhealth/spotgear documentation built on May 25, 2021, 10:38 p.m.