Metadata-Version: 2.1
Name: promoterExtract
Version: 0.9.4
Summary: Extract promoter sequence for biologists
Home-page: https://github.com/SitaoZ/promoterExtract.git
Author: zhusitao
Author-email: zhusitao1990@163.com
License: MIT
Description: # Overview
        
        The promoterExtract is python package for bioinformatics. 
        The packages contains two subcommands.
        The create subcommand is used for creating database and
        extract subcomand is used for extracting promoter sequence.
        Argument -l means the length of promoter, int type.
        Argument -u utr5 after TSS, int type.
        Argument -f reference genome fasta of a specific organism.
        Argument -g annotation file including GTF and GFF.
        Argument -o means output file path.
        
        ## Brief introduction of format package
        
        1. **Install** <br>
            ```bash
            pip install promoterExtract
            # other
            git clone https://github.com/SitaoZ/promoterExtract.git
            cd promoterExtract; python setup.py install
            ```
        
        2. **Usage** <br>
            ```bash
            which get_promoter
            get_promoter -h 
            get_promoter create -h 
            get_promoter extract -h 
            ```
        
            ```bash
            # step 1 
            get_promoter create -g ath.gff3 
            # step 2
            get_promoter -l 200 -u 100 -f ath.fa -o promoter.csv
            ```
            
        
Keywords: promoter
Platform: UNKNOWN
Description-Content-Type: text/markdown
