call_erra {acm4r} | R Documentation |
This function analyzes fingerprint replicate data. Replicates are repeated measurements of the same sample in one or more gels, which allows the reproducibility of the measurement to be ascertained.
call_erra(rep.file, work_dir = ".", dnum = 1, sd = 4, delete = FALSE)
rep.file |
is the full name and path of the replicate file |
work_dir |
is where the datasets should be stored |
dnum |
is the file number |
sd |
is the standard deviation needed to calculate all things, Salamon et al. (1998) suggested a value of 4 for sd |
delete |
logical value indicating if you want to delete any pre-existing acm.par files. Default is FALSE |
the parameter filed called acm.par, needed by call_acm. This file contains information on about the measurement error present in the data.
call_erra
doesn't work for unequal number of trials.
This function needs to be run before call_acm.
Andrea Benedetti andrea.benedetti@mcgill.ca
Sahir Rai Bhatnagar
XiaoFei Zhao
Salamon et al. (1998) Accommodating Error Analysis in Comparison and Clustering of Molecular Fingerprints. Emerging Infectious Diseases Vol. 4, No. 2, April-June 1998
Abasci LLC. JAMES v1.0 User Documentation. 2002.
#generate the error parameter file needed by call_acm call_erra("replicates.in", dnum=1, sd=1, delete=TRUE)