Deep Codon Mutation Analyser
Project description
Deep Codon Mutation Analyser (DCMA)
Installation
pip install dcma --user
Usage
CLI:
usage: run-dcma [-h] [--reportName REPORTNAME] [--reportPath REPORTPATH]
[--searchKP SEARCHKP] [--debug]
TARGET REPORTTYPE
Analyse all protein alignment .fasta files from a target.
positional arguments:
TARGET Target .fasta file to be analysed.
REPORTTYPE Output report file type.
optional arguments:
-h, --help show this help message and exit
--reportName REPORTNAME
Output report custom file name.
--reportPath REPORTPATH
Output report custom file path.
--searchKP SEARCHKP Custom keyphrase to detect searchable sequences.
--debug Turn debug messages on.
Python:
import dcma.core as solver
target_path = 'example.fasta'
report_name = 'myrep'
report_type = 'xls'
report_path = 'results-folder' # optional
solver.set_debug_mode(True) # optional
# results[0] -> polarity results dataframe
# results[1] -> alerts dataframe
results = solver.run(target_path)
# option 1: export to the current folder
solver.export(results, report_type, report_name)
# option 2: export to custom folder
solver.export(results, report_type, report_name, report_path)
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