reports: Genome and assembly reports

Description Usage Arguments Details Value Author(s) References Examples

View source: R/reports.R

Description

Genome and assembly reports from the NCBI genomes FTP

Usage

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reports(file, assembly = FALSE, ...)

Arguments

file

file name, if missing then the files in the FTP directory are listed

assembly

use ASSEMBLY_REPORTS directory, default is GENOME_REPORTS

...

additional options passed to read_delim

Details

Uses read_delim in the readr package to read genome or assembly reports in the genomes FTP

Value

A list of files if file name is missing, otherwise a data.frame with class c("tbl_df", "tbl", "data.frame"). If dplyr is loaded, then printing will return the first ten rows and not the first 10,000.

Author(s)

Chris Stubben

References

See ftp://ftp.ncbi.nih.gov/genomes/GENOME_REPORTS and ftp://ftp.ncbi.nih.gov/genomes/ASSEMBLY_REPORTS

Examples

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reports()
## Not run: 
proks <- reports("prokaryotes.txt") 

## End(Not run)

genomes documentation built on May 20, 2017, 9:18 p.m.

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