README

DNAzip: Fast and Deep Compression for Raw and Compressed Sequencing Data

Download and Install:

Requirements:
Python 2.7.*
bz2file

## Linux or Macox command line
(sudo) pip install bz2file
git clone git@github.com:adamtongji/DNAzip.git
export $PATH=/your/path/to/DNAzip/
chmod 777 /your/path/to/DNAzip/DNAzip

Main arguments:

usage: DNAzip <-f file> <-d> [-o output prefix] [options]

Example:
DNAzip -f ./example/ecoli.fasta -t fasta -o ecoli_fasta
DNAzip -f ./example/sample.fastq -t fastq -o sample_fastq

optional arguments:

Parameter	Introduction
-h, --help	show this help message and exit
-v, --verbose	increase ouput verbosity.
-q, --quiet	No output log file.
-t FILE_TYPE, --type FILE_TYPE	fasta or fastq
-f INPUT_FILE, --file INPUT_FILE	input filename
-o OUTPUT_FILE, --output OUTPUT_FILE	Output filename prefix(Default:noname)
-d, --decode	extract from the compressed file
-w OUT_WIDTH, --width OUT_WIDTH	Define width of outputfile. Default:0(no limits)
-l LEVEL, --level LEVEL	Compression level. Default:6
--version	show program's version number and exit