Description Usage Arguments Value Examples
Run differential splicing anaysis.
1 2 | run_analysis(dataDir, cases, MAX_ITER = 8, BIAS = F,
FPKM_filter = 0.1, MCMC = FALSE, verbose = FALSE)
|
dataDir |
A string for the path of the input data dir. |
cases |
A vector of strings indicating which samples are treatment samples. |
MAX_ITER |
A number for the max iteration num for the EM algorithm. Default is 8. |
BIAS |
A boolean for doing bias correction or not, default is False |
FPKM_filter |
A number for fpkm filtering. Default is 1.0. |
MCMC |
A boolean for using MCMC instead of EM algorithm for optimization. Note that this will be very slow. Default is False. |
verbose |
A boolean for more verbose messages. Default is False. |
A list of genes. Each gene has multiple data.frame
1 | run_analysis("my_path_to_data", c("caseSample1, caseSample2, caseSample3"), MAX_ITER = 5, BIAS = F, FPKM_filter = 1.0, MCMC = FALSE, verbose = FALSE)
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