data_simulate

A command-line toolkit to simulate illumina data for testing tools from NGS data dealing.

Please refer to data_simulate for details.

Features

• Easy to install and use
• Support for multi-threaded processing tasks
• Simulate multiple variated data at the same time

Usuage

Please use the command line as follows to refer usuage:

./bin/main_process.py -h

Usage:
    main_process.py [-l=150] [-c=100000] [-b=1] [-t=1] [-p=1] [-d=1] [--dup <dup-ratio>] [--del <del-ratio>] [--ins <ins-ratio>] [--inv <inv-ratio>] [--rep <rep-ratio>]

Testing different tools on different raw-fasta-based variations

Options:
    -h --help
    -l,--length=150             reads length of simulated fasta [default: 150]
    -c,--count=100000           number of reads/read pairs [default: 100000]
    -b,--basepair=1             the length of variated bases [default: 1]
    -p,--copys=1                the copy number variation of duplication [default: 1]
    -t,--times=1                the repeat time [default: 1]
    -d,--thread=1               the worker threads [default: 1]
    --dup <dup-ratio>           the proportion of duplicated-variation reads in all reads
    --del <del-ratio>           the propertion of deleted-variation reads in all reads
    --ins <ins-ratio>           the propertion of inserted-variation reads in all reads
    --inv <inv-ratio>           the propertion of inversed-variation reads in all reads
    --rep <rep-ratio>           the propertion of repeated-variation reads in all reads

Contact

It will be helpful for all users to post questions on github if you have.

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