run_aspera: 'Run Aspera Connect to download from SRA.'
In yangjl/farmeR: Generate pipelines for maize Genomic and Genetic analysis

Description Usage Arguments Details Value Examples

Downloading SRA using 'ascp' utility or Aspera Connect. How to download and install 'ascp': http://downloads.asperasoft.com/en/downloads/8?list

1 2	run_aspera(sra, maxspeed = "200m", outdir = ".", arrayjobs = "1-2", jobid = "aspera", email = NULL)

`sra`	An input data.frame for SRA ids. Must contains column: SRR.
`maxspeed`	The max speed for downloading.
`outdir`	The output directory.
`arrayjobs`	A character specify the number of array you try to run, i.e. 1-100.
`jobid`	The job name show up in your sq NAME column.
`email`	Your email address that farm will email to once the job was done/failed.

see more detail about SRA with Aspera downloading: http://www.ncbi.nlm.nih.gov/books/NBK158899/#SRA_download.downloading_sra_data_using

return a batch of shell scripts.

sra <- data.frame(SRR=c("ERR877647", "ERR877648"),
SRX=c( "ERX957210", "ERX957211"),
pid=c( "1_Base1_Bbreve-sc-2188486", "P1_ECvsrS_1-sc-2201977"))
run_aspera(sra, maxspeed="200m", outdir=".", arrayjobs="1-2", jobid="aspera", email=NULL)