Module DIGEST

source code

Main script for DIGEST workflow CCRT version

Requires:

python (tested with 2.7.3)
hashlib
BWA
RayMeta
Metagene
cd-hit (tested with v4.5.8-2012-03-24)
DIGEST_functions.py (PYTHONPATH)
SAMparser.py
ExtractFastaFromSAM.py
extendTargets_allPossibility.py
hashlibfasta-splitter.pl
extractORFsequences.py
removeIdenticalSeq.py
cd-hit-para-CCRT.py
DIGEST_clear.sh
DIGEST_check.sh

Functions

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get_parser()

source code

main()

source code

Variables

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__doc__ = ...

__package__ = None

e = 2.71828182846

pi = 3.14159265359

Variables Details

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doc

Value:

"""
Main script for DIGEST workflow CCRT version

@requires: U{python<https://www.python.org/downloads/>} (tested with 2
.7.3)
@requires: U{hashlib<https://pypi.python.org/pypi/hashlib>}
@requires: U{BWA<http://sourceforge.net/projects/bio-bwa/files/>}
@requires: U{RayMeta<http://sourceforge.net/projects/denovoassembler/f
...