Metadata-Version: 2.1
Name: ncbidare
Version: 0.0.1
Summary: Fetch NCBI data efficiently
Home-page: https://github.com/riddhisera/microbio
Author: Riddhi Sera
Author-email: riddhisera@gmail.com
License: UNKNOWN
Description: ### NCBI DAtaREtrival
        Retrives your NCBI search results and through Entrez in a user friendly way.
        
        ## Installation
        Run the following to install:
        ```python
        pip install ncbiget
        ```
        
        ## Usage
        
        ```python
        # retrives results from NCBI and writes it to a csv file (Accession ID and Definition)
        # query: search details         count: number of items      filename: output file name
        from ncbiget import get_genbank
        get_genbank(query="Klebsiella pneumoniae", count=1, filename="results.csv") # default
        
        #to get list of unique strains from the csv file
        #MAKE SURE THE FORMAT OF THE CSV FILE IS SIMILAR TO THE RESULT FILE FROM get_genbank() i.e. Descriptions should be in column 3
        # filename: input file name 
        from ncbiget import get_strains
        get_strains(filename="results.csv") # default 
        
        #to get fasta file of each strain
        #MAKE SURE THE FORMAT OF THE CSV FILE IS SIMILAR TO THE RESULT FILE FROM get_genbank() i.e. Descriptions should be in column 3
        # filename: input file name 
        from ncbiget import get_fasta
        get_fasta(filename="results.csv") # default
        ```
        
        ## Developing ncbidare
        
        To install ncbidare along with the tools you need to develop and run tests, run the following in your virtualenv:
        ```bash
        pip install -e .[dev]
        ```
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Classifier: Operating System :: OS Independent
Description-Content-Type: text/markdown
Provides-Extra: dev
