Zmapqtl

Owned by mhelmke
Last updated: Jun 03, 2015 by kkennedy
1 min read

Zmapqtl

Zmapqtl implements interval mapping and composite interval mapping with the options to perform a permutation test.

Quick Start

  • To use Zmapqtl, upload your data in the same format as the output Rcross. Zmapqtl requires a molecular map in the same format of Rmap outputs. In addition, the program requires the results of the stepwise linear regression analysis of SRmapqtl for composite interval mapping.
  • Resources: documentation

Test Data

All files are located in the Community Data directory of the iPlant Discovery Environment at the following path:

Community Data > iplantcollaborative > example_data > zmapqtl

Input File(s)

  • Use qtlcart.cro as input.
  • Use qtlcart.map as input.
  • Use qtlcart.lr as input.
  • Use qtlcart.sr as input.

Parameters Used in App

When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.

  • Default parameters only, no further configuration needed.

Output File(s)

Output files can be located in the example data folder in the DE at the following path: Community data > iplantcollaborative> example_data > zmapqtl

  • Expect qtlcart.z as output.
  • Expect qtlcart.log and qtlcart.rc as output.

Tool Source for App