Index exceeds matrix dimensions GISTIC

[Loreina]

I am working on Gistics 2 with my segmentation files

It keeps telling me that the Index exceeds matrix dimensions error.

Can you help me to solve this problem?

It is with the job ID: 157573

Here is the specific error message:

Index exceeds matrix dimensions.

Error in check_if_has_header (line 25)



Error in read_segfile (line 26)



Error in make_D_from_segseq_data (line 38)



Error in run_gistic2_from_seg (line 193)



Error in gp_gistic2_from_seg (line 97)



MATLAB:badsubscript

[Barbara Hill]

Hello Loreina, 

The error shows that it can't read your headers, which is because the seg file is not correctly formatted.

First and foremost it should be tab, not comma-delimited.

The GISTIC documentation provides more details and an example.

http://software.broadinstitute.org/cancer/software/genepattern/doc/GISTIC_2.0/2.0.23/GISTICDocumentation_standalone.htm

Best

-Barbara