Read MGATK output
Read output files from MGATK (https://github.com/caleblareau/mgatk).
ReadMGATK(dir, verbose = TRUE)
dir |
Path to directory containing MGATK output files |
verbose |
Display messages |
Returns a list containing a sparse matrix (counts) and two dataframes (depth and refallele).
The sparse matrix contains read counts for each base at each position and strand.
The depth dataframe contains the total depth for each cell. The refallele dataframe contains the reference genome allele at each position.
## Not run:
data.dir <- system.file("extdata", "test_mgatk", package="Signac")
mgatk <- ReadMGATK(dir = data.dir)
## End(Not run)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.