rsra

The goal of {rsra} is to query download information for SRA accession list and download them with wget.

Installation

wget is required in your system.

You can install this package with:

# remotes::install_github("ShixiangWang/rsra")
install.packages("rsra", repos = c('https://shixiangwang.r-universe.dev', 'https://cloud.r-project.org'))

Example

Function signature:

> args(rsra)
function (idList, outdir = getwd(), progress = FALSE, location = c("NCBI", 
    "AWS"))

The first argument can be file(s) storing accession list in each line.

In R console

library(rsra)
rsra("SRR8615934")

In terminal

Rscript -e 'rsra::rsra("SRR8615934")'

Similar projects

• get-ena-seq

Related tool

• ffq - A tool to find sequencing data and metadata from public databases

LICENSE

GPL-3