Python package for inference of the gene regulatory network and the boolean network using RNA-Seq data.
Project description
Python package: From RNA-Seq to the Boolean Network through the Gene Regulatory Network
Documentation and tutorials are available at augusta.readthedocs.io
Quick Guide
Installation:
$ pip3 install Augusta
Dependencies:
Python 3, up to 3.8
Docker
Usage:
$ python3
>>> import Augusta
GRN and BN inference using RNA-Seq:
>>> Augusta.RNASeq_to_SBML(count_table_input, promoter_length, genbank_file_input, normalization_type)
GRN inference using RNA-Seq:
>>> GRN = Augusta.RNASeq_to_GRN(count_table_input, promoter_length, genbank_file_input, normalization_type)
BN inference using GRN:
>>> Augusta.GRNtoBN(GRN_input, promoter_length, genbank_file_input, add_dbs_info)
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Augusta-1.0.2.tar.gz
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