Install fastq-dl To easily download fastq from GEO or ENA, use fastq-dl
Assume you already have conda installed, do the following:
conda config –add channels conda-forge conda config –add channels bioconda conda create -n fastq_download -c conda-forge -c bioconda fastq-dl conda activate fastq_download Tip: use mamba if conda is too slow for you. They are all big snakes!!
We will use bulk RNAseq data from this GEO accession ID:
https://www.