Tools for modelling the growth dynamics of arrays of large numbers of colonies and performing quantitative fitness analysis (QFA).


[Up] [Top]

Documentation for package ‘qfaBayes’ version 0.0-1

Help Pages

a URA3_Raw_trim
ask_plot_simple Ask user if they want to plot
a_15 URA3_Raw_extratrim_15
b CDC13-1_Raw_trim
b_15 CDC13-1_Raw_extratrim_15
funcARRAYTRANS Creates and transposes an array
funcARRAYTRANS_J Creates and transposes an array (JHM)
funcColORF Adds NA values at the end of an ORF to give consistent Col length for an array
funcGENE Gives gene names from ORF names
funcIDORDER Order by ORF and ID coloumn
funcNoORF Gives number of repeats for each ORF
funcNoSum Gives running total for the number of repeats for each ORF
funcNoTime Gives number of time points for a repeat
funcREMOVE Filter by Screen Name, Temprature and Master Plate Number
funcRowRep Adds NA values at the end of a repeat to give consistent row length for an array
funcSCALING Scales data by maximum theroetical value for IOD
funcXY Sorts data into array with correct dimensions
funcXY_J Sorts data into array with correct dimensions (JHM)
IHM_main Runs IHM C code
JHM_main Runs JHM C code
JHM_postpro Proforms post processing for JHM
plot_IHM_simple plot IHM_simple_C output
plot_JHM_simple plot JHM_simple_C output
plot_SHM_simple plot SHM_simple_C output
priors_IHM priors_IHM
priors_JHM priors_JHM
priors_SHM priors_SHM
qfa.variables Gives experiment variables from Colonyzer output
SHM_main Runs SHM C code
SHM_postpro Proforms post processing for SHM