Beckman Coulter CEQ 8000, User Manual

Page: 215 / 382

Setting or Changing Display Options
User’s Guide 201
Sequence Export File Types
Listed in Table 71 are the available export file types and options.
Table 71: Sequence Export Options
Format Description
SCF (.scf)
The SCF (Standard Chromatogram Format) format is used to store analyzed
DNA sequence data for a single sample. The format describes both "public" and
"private" data sections. The well-defined public data section contains trace data
points, the called sequence, the positions of each called base within the trace
data, and the call scores for each called base. A public comment section is also
defined. The "private" section can be used to store other information that will
generally be ignored by most software packages.
The CEQ System uses the private data section to store sample data (including raw
data along with current and voltage data). Sample data from either sequencing or
fragment analysis samples can be stored. The notes and property sets for the
sample are stored in the comment section. The CEQ System software supports
SCF versions 2.1 and 3.0. (You would use this format, for instance, to export
analyzed sequence data into Lasergene's SeqMan from DNASTAR Inc.).
Third-Party packages cannot currently view raw data, current, or voltage.
However, custom applications can be written to view the data.
Use the SCF format to transfer data from instrument to instrument, or to import
data from third-party software into the CEQ Sequence Analysis module. If you
use SCF to exchange data between instruments you will lose informational data
such as sample plate name, capillary array serial number, etc. If you wish to
maintain exact copies of data including header information, use the CEQ format
and import and export these data via the Data Manager.
Tab-
Delimited
Text (.txt)
The Tab-delimited format is valid for raw data, sequence results and fragment
results. Check the Raw Data check box to include raw data, as well as current and
voltage data. Check the Results Data and Results Output check boxes to include
the sequence results.
The data points will be expressed as text values and can be viewed in any text
editor or in Excel.
SEQ (.seq)
The Seq format only applies to the sequence results portion (e.g., text bases) of
analyzed sequence data. This format is used, for instance, to export data into
Lasergene's SeqMan from DNASTAR Inc. If the SEQ format is selected, the
Result Output (Base Sequence) will be exported automatically if the sample has
been analyzed with a sequence analysis parameter set. If the sample has been
analyzed with a fragment analysis parameter set, nothing will be exported.