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@@ -38,6 +38,7 @@ The \*.sh file mentioned in this section is located under <a href="https://githu
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- qsub process_main.sh ./config_normal.txt
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- qsub process_main.sh ./config_tumor.txt
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+The \*.sh files mentioned in sections 2.1 and 2.2 are located under <a href="https://github.com/DIDSR/HPC_DPAI/tree/master/prediction">prediction</a> directory while the config_*.txt files are at the <a href="https://github.com/DIDSR/HPC_DPAI"> root </a> directory of the codes.
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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 example 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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Mike Mikailov