FAQ

• What is required to run Census?

  Census is written in Java, and it requires Java version 6 or later (See http://java.sun.com).

• How does Census find ms1 file name from DTASelect or pepXML files?

  In the DTASelect-filter.txt file, you can find the peptide line something like "120205_yeast_1to1_LTQ_FTMSComp-03_itms.17972.17972.3". ms1 file name should be same as the line, for example, like 120205_yeast_1to1_LTQ_FTMSComp-03_itms.ms1.

• Can I run multiple experiments in the GUI?

  You can run the experiment one by one in the GUI. However, users can run batch experiments by simple scripts. There is a bug to fix in the Census: if you run multiple experiments by the GUI and the Census freezes, users need to close and restart Census GUI to run next experiment. This bug was reported and will be fixed.

• Can I have sample working data for Census?

  Download it at download page

• Where can I download the Census software?

  The manuscripts of Census was submitted and under review. Until it is published, you can contact Robin Park by rpark (AT) scripps.edu to get the software.

• I received an 'out of memory' error. What should I do?

  Try to change memory in census.bat file, e.g. Xmx200m to Xmx500m. Similar in Unix or Linux, change Java Xmx parameter value.

• I know the Census support high resolution data like Orbitrap, but does it support low resolution data, too?

  Census supports both high (e.g. Orbitrap) and low resolution (e.g. LTQ). In fact, Census does not depend on any instruments or brands. Census relies on the spectral file formats (e.g. mzXML or MS1/MS2), not the instruments. Just keep in mind that when you run low resolution data, change the configuration file to whole isotope envelop option.

• What is the 2 in the census config file?

  1 is for low resolution data, while 2 for high resolution data