2012 NGS Field Guide – Table 3b – Computation Resources

Table 3b. Computational resources needed and size of data files for commercially available DNA sequencing platforms in 2011. All costs are list price in thousands of US dollars.

Instrument Computational Resourcesc Data File Sizes (GB)d
3730xl (capillary) desktop 0.03
454 GS Jr. Titanium $5 (desktop) <3 images, <1 sff
454 FLX Titanium $5 (desktop) 20 images, 4 sff
454 FLX+ $5 (desktop) 40 images, 8 sff
PacBio RS $65 cluster 20 pulsed, 2 Fastq
Ion Torrent – 314 chip $16.5 (desktop) 0.1 Fastq
Ion Torrent – 316 chip $16.5 (desktop) 0.6 Fastq
Ion Torrent – 318 chip $16.5 (desktop) [small]
Ion Torrent – Proton I $75 cluster [big]
Ion Torrent – Proton II $75 cluster [big]
SOLiD – 5500xl $35 clusteri 148k*
Illumina MiSeq Desktop/cloud 1k*
Illumina HiScanSQ $222 clusterm 50k*
Illumina GAIIx $222 clusterm 600
Illumina HiSeq 1000 $222 clusterm ≤300k*
Illumina HiSeq 2000 $222 clusterm ≤600k*
Illumina HiSeq 2500 $222 clusterm [big]
Oxford Nanopore minION laptop [small]
Oxford Nanopore GridION 2000 ? [small to big]
Oxford Nanopore GridION 8000 ? [small to big]

c
Desktops assume higher-end models with multiple processors, ≥8 GB RAM, ≥1 TB HD, etc. (up to $5k; except capillary = $2k desktop)

d
Data file size transferred from instrument server to offline cluster

i
Compute cluster available from Life Technologies

k
New compressed binary data format saves base and quality-value data in a 1byte:1base ratio

m
Illumina Compute – Tier 1 system: 3 cluster nodes with 8 cores and 48 GB RAM per node (i.e., 24 cores and 144 GB RAM) and ~24 TB usable data storage; commodity equivalent systems are available for much less, but will require technical support (see text).

[big/small] = general indication of size