View Single Post
Old 02-13-2019, 11:24 AM   #1
Location: Italy

Join Date: Jul 2017
Posts: 34
Default download with fastq-dump

Hello everyone, I'm still new to RNAseq and I hope I can find someone to help me out with my question.

I want to download RNAseq data (SRR) using SRA Toolkit which I already installed have on my macbook.

this is the link from where I want to download the data

I created a folder named processing and a subfolder named raw to where I want to put this data files.
The command line is this one

Patrizios-MBP:raw patrizio$ fastq-dump --outdir raw/ --split-3 --gzip SRR359063

why do I get this?

-bash: fastq-dump: command not found

what is missing?

thank you
NDUFB11 is offline   Reply With Quote