Applied Biosystems SOLiD™ 4 System SETS Software User Guide ...

D
Appendix D Advanced Topic: Primary Analysis
Key files generated by primary analysis
xxx_sequence.QV.qual
The QV.qual files are fasta-like files that list the quality values in
sequence order (not cycle order).
The format is:
TAG_ID
Quality Values:
For example:
>97_2040_1850_F3
38 36 26 33 41 26 24 33 28 31 27 23 5 35 32 31 11 10 24
38 22 24 7 12 15 21 12 18 34 31 27 11 15 26 13 14 17 17
13 12 8 5 17 5 12
>97_2040_1898_F3
41 41 41 38 32 29 39 24 23 36 32 38 25 30 28 21 27 33 34
33 24 27 9 35 34 14 30 18 33 8 13 32 10 31 24 7 22 5 27
30 21 5 0 27 9
All primary data (with exception of images) is stored in the file
xxxx.spch. This file is in the HDF5 format. Tools to view and extract
this data are available at:
http://www.hdfgroup.org/HDF5/.
The data within the ".spch" file is organized by cycle. You can
extract data in any format for your own analysis pipelines.
184 Applied Biosystems SOLiD 4 System SETS Software User Guide