GeneralNGS

Basespace

Use Illumina's native GUI client or run BaseMount on Ubuntu.

The Python downloader is deprecated and no longer supported by Illumina.

Figuring out what sequencer was used from FASTQ read names

(via stackoverflow)

AAXX = Genome Analyzer 
BCXX = HiSeq v1.5 
ACXX = HiSeq High-Output v3 
ANXX = HiSeq High-Output v4 
ADXX = HiSeq RR v1 
AMXX, BCXX =HiSeq RR v2 
ALXX = HiSeqX 
BGXX, AGXX = High-Output NextSeq 
AFXX = Mid-Output NextSeq 
5 letter/number = MiSeq