Question: GISTIC 2.0 Error
gravatar for starz
9 months ago by
starz0 wrote:

Hello, Everyone I am running GISTIC for copy number analysis. But, some errors occurred like this.

--- running GISTIC --- Setting Matlab MCR root to /opt/GISTIC/MATLAB_Compiler_Runtime GISTIC version 2.0.23

Warning: Shortened 1 segments in '/GISTIC_result/P57/P57_gistic_seg.txt' that overlap by one marker.

[^H> In make_D_from_seg at 268 In run_gistic2_from_seg at 188 In gp_gistic2_from_seg at 97]^H

Warning: Number of markers is less than smooth length for the following chromosomes: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22. These chromosomes will not be smoothed. (Smooth length = 8.)

[^H> In smooth_cbs at 54 In clean_gistic_input at 77 In run_gistic2_from_seg at 238 In gp_gistic2_from_seg at 97]^H

GISTIC 2.0 input error detected: Only one sample remains after noise filtering.

I made segmentation and marker file from NGS data.

I have been struggling for weeks because of this error.

How can I fix it?

software error • 311 views
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