qTeller MaizeGDB
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September 2018: MaizeGDB qTeller has a new look! A navigation bar at the top with tool drop-down menus makes navigation easier.

27-August-2018: The issue with qTeller due to a server problem has been resolved.

Questions or suggestions? Please let us know on the Contact page.

Frequently Asked Questions (FAQ):

What mapping pipeline does MaizeGDB qTeller use?

For high-throughput mapping of hundreds of SRA runs, we have deviated from the Classic qTeller pipeline by using the STAR mapping algorithm instead of GSNAP. However, we use Cufflinks to count FPKM, just as Classic qTeller does. We map reads against the whole genome, not gene models. Note that as mapping and abundance-counting algorithms continue to evolve, the algorithms we use may also change over time.

What parameters does MaizeGDB qTeller use to map and count reads?

We use default STAR and Cufflinks parameters, and we do not trim our fastq reads before mapping (except where noted).

Who created qTeller?

qTeller was created by Professor James Schnable of the University of Nebraska-Lincoln (Schnable Lab Website) while he was a graduate student at UC Berkeley in Mike Freeling's lab. James was generous enough to allow MaizeGDB to host a version of qTeller on our site.