arrayExpressDownloader

Downloader for Array Express Website

Just run the program by giving it the accession number of an experiment (for example : E-MTAB-2600).

arrayExpressDownloader.sh E-MTAB-2600

In the directory from where it is launched, it writes an .info file gathering information about the experiment. It also creates a "Reads" directory, where samples are downloaded and compressed to bz2.

(should be robust to variations in experiments, as it uses the REST API of Array Express)

Note concerning files size

As an estimate for SMART-seq data you should consider 750Mo for each file. Since each cell has 2 files (paired-end sequencing), the space required by one experiment would be 1.5 Go times the number of cells.