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@@ -35,11 +35,11 @@ The following commands launch Son of SGE jobs to generate prediction matrices.
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- qsub process_main.sh ./config_tumor.txt
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# 3 Heatmap stitching
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-After the predictions matrices have been generated an SGE job using heatmap_main.sh SGE scrip could be launched to genertae heatmaps. Two arguments for this launch are: a) type of the slides (test, normal or tumor); b) the root directory of the results, like in below ecxample run:
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+After the predictions matrices have been generated an SGE job using *heatmap_main.sh* SGE scrip could be launched to genertae heatmaps. Two arguments for this launch are: a) type of the slides (test, normal or tumor); b) the root directory of the results, like in below ecxample run:
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- qsub heatmap_main.sh test /scratch/mikem/UserSupport/weizhe.li/runs_process_cn_True/testing_wnorm_448_400_7690953
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# 4 Retreiving run-time statistics
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-In time_all_stats_pred.sh file adjust job results root directory, like:
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+In *time_all_stats_pred.sh* file adjust job results root directory, like below:
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- DIR=/scratch/mikem/UserSupport/weizhe.li/runs_process_cn_False/normal_wnorm_448_400_7691563
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Then run:
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- time bash ./time_all_stats_pred.sh
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Mike Mikailov