generate_decoy_reads: Generates (decoy) reads from a sequence
In jkruppa/virDisco: Modules for a viral detection pipeline

Description Usage Arguments Details Author(s)

The function draws randomly reads from a sequence. Linux only due to cat commands.

1 2	generate_decoy_reads(decoy_seq, paired = TRUE, read_num = 10000, read_length = 50, read_gap = 50, split = 10, par_list)

`decoy_seq`	Sequence to draw the reads from as DNAStringSet
`paired`	Should the reads be paired? [default = TRUE]
`read_num`	How many reads should be generated? [default = 10000]
`read_length`	How long should the reads be? [default = 50]
`read_gap`	How large should be the gap between paired reads? [default = 50]
`split`	How many processes should be run in parallel? [default = 10]
`par_list`	Parameter given by the par_list(), see `set_par_list`

The function draws in parallel from a inital seqeunce a given nuber of paired reads. The reads are saved temporal in the tmp folder definied by set_par_list.

Jochen Kruppa

jkruppa/virDisco documentation built on May 3, 2019, 7:05 p.m.