ncbi-db 0.0.3

Collection of scripts that wrap the Entrez Bio python module, to query and download portions of NCBI databases

ncbi_db

Collection of scripts that wrap the Entrez Bio python module. Mainly to build your own copy of selected entries form the ncbi databases

Right now these tools are available:

• ncbi_lib.py library of functions; not to be executed
• ncbi_db_info.py simply to display the available fields in any ncbi DB, browsable through the BioPython tools
• ncbi_assembly.py to browse the available assemblies/genomes for any species or lineage, including their annotation/proteome, and possibly download them in a local folder
• parse_genbank.py parse a gbf file to extract selected entries. Requires GBParsy module
• ncbi_pubmed.py wrapper to ncbi pubmed search engine; it can format results for bibliography