Package guidemaker

GuideMaker: Software to design gRNAs pools in non-model genomes and CRISPR-Cas systems.

Expand source code
"""GuideMaker: Software to design gRNAs pools in non-model genomes and CRISPR-Cas systems."""
import pkg_resources
from ._version import get_versions
from .core import *
from .cli import *
from .definitions import *
from .cfd_score_calculator import *
from .doench_predict import *
from .doench_featurization import *

CONFIG_PATH = pkg_resources.resource_filename('guidemaker', 'data/config_default.yaml')
APP_PARAMETER_IMG = pkg_resources.resource_filename('guidemaker', 'data/parameters.png')
APP_EXPERIMENT_FILE = pkg_resources.resource_filename('guidemaker', 'data/PooledCRISPRExperiments.md')
WEB_APP = pkg_resources.resource_filename('guidemaker', 'data/app.py')

__all__ = ["core", "cli", "definitions", "doench_featurization", "doench_predict", "cfd_score_calculator"]

__version__ = get_versions()['version']
del get_versions

Sub-modules

guidemaker.cfd_score_calculator

cfd_score_calculator.py This is a modified version of the CDF score calculator in Doench et al. (2016) for use in Guidemaker (https://guidemaker.org) …

guidemaker.cli

GuideMaker: The command line interface A command line Software to design gRNAs pools in non-model genomes and CRISPR-Cas systems

guidemaker.core

Core classes and functions for GuideMaker.

guidemaker.data
guidemaker.definitions
guidemaker.doench_featurization

doench_featurization.py. Simplified feature extraction to run the model 'V3_model_nopos' from Doench et al. 2016 for on-target scoring …

guidemaker.doench_predict

doench_predict.py. Simplified module to run the model 'V3_model_nopos' from Doench et al. 2016 for on-target scoring …