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--species (or -s) flag to specify one of a few built-in species data. This negates the need for specifying tRNA references, tRNAscan out files, and mitochondrial tRNA sequences
Species files for which there isn't built in data can still be specified using -t, -o and -m
Package now available on PyPi and installable using pip
mods/readthroughTable.csv is now and additional which gives information on the proportion of reads that stop at a given site relative to the total reads at that site (as opposed to RTstopTable.csv which gives the proportion of total reads for the tRNA that stop at a site)