Collection of scripts that wrap the Entrez Bio python module, to query and download portions of NCBI databases
Project description
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
Installation
conda install -c mmariotti ncbi_db
Tools
Right now these tools are available:
- ncbi_assembly to browse (and download) the available assemblies/genomes for any species or lineage, including their annotation/proteome
- ncbi_sequences search and download nucleotide/protein sequences or their metadata
- ncbi_pubmed wrapper to ncbi pubmed search engine; it can format results for bibliography
- ncbi_taxonomy search NCBI taxonomy
- ncbi_taxonomy_tree
- ncbi_db_info displays the available fields in any NCBI DB, useful before running ncbi_search
- ncbi_search generic search tool for any NCBI DB
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Source Distribution
ncbi_db-0.0.4.tar.gz
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Built Distribution
ncbi_db-0.0.4-py3-none-any.whl
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