Mockreator Files

Mockreator1.0

Modern bioinformatics methods often requires benchmarking of their performances. Mockreate is a relatively fast and effective tool useful for producing random synthetic mock communities containing DNA sequences from various taxonomical sources.

Instructions

Mockreate1.0 works in Unix environment. The only program that is required to be installed on your machine is R. In order to run the program:

1 - download the Mockreator1.0.zip file hosted on this repository;

2 - unzip the file 'gzip -d Mockreate1.0.zip'

3 - launch the script 'bash ~/Mockreate.sh' with the proper flags inside the unzipped folder. The program will run and then clean all the temporary files produced, leaving only the newely generated mock community in the folder together with the scripts.

• Mockreate flags:

  -A/--Archea: Amount of Archeal DNA in your mock (report desidered percentage)

  -B/--Bacteria: Amount of Bacterial DNA in your mock (report desidered percentage)

  -E/--Eukaryota: Amount of Eukaryotic DNA in your mock (report desidered percentage)

  -V/--Viruses: Amount of Viral genetic material in your mock (report desidered percentage)

  -S/--Size: number of reads to be contained in your mock

  -L/--Length: 150 <Please, note that in this first release of Mockreate is not possible to set the max length of reads, as it is default set to 150>

EXAMPLES OF USE

bash Mockreate.sh -A 5 -B 50 -E 15 -V 30 -L 150 -S 1000

NOTE

This first release is a beta, and new functions will be releases in the next release, eg.:

• adding specific organisms of interest at the mock
• speeding up the process by task optimisation