fetch_bacteria_metadata: Genbank's bacterias metadata

In ArnaudDroitLab/wgs: Automate the downloading of genbank wgs

Description

Fetch the metadata for all the bacterias in Genbank

Usage

fetch_bacteria_metadata()

Details

Data is obtained from the assembly_summary.txt file: ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/bacteria/assembly_summary.txt

Value

A data.frame with the following columns:

• assembly_accession

• asm_name

• refseq_category

• organism_name

• infraspecific_name

• assembly_level

• version_status

• ftp_path

Examples

## Not run: 
  bacteria <- fetch_bacteria_metadata()

## End(Not run)

ArnaudDroitLab/wgs documentation built on June 21, 2019, 1:51 p.m.