NCBI Data Retrival

Contains python codes that use Entrez library to fetch NCBI data to your local computer. These codes specifically help in the retrival of the Indian strains of Klebsiella pneumoniae.

Important files:

1. netResultsCsv.py : retrives results from NCBI (query: Klebsiella pneumoniae AND "whole genome" AND India AND ("300000"[SLEN] : "800000"[SLEN])) to a csv file (indianwholegenome_570.csv)
2. createFasta.py : to retrieve the individual genome as seperate files (in fasta/txt format) from the queries in csv input (indianwholegenome_570.csv)
3. combinedFasta.py : to retrive combined genome files of the same strains (input : indianwholegenome_570.csv, output: kleb_EN5275.fasta, kleb_5338.fasta...)