B_scripts

B_scripts

• C_sashittal2023startle-data-in-startle is the folder containing scripts to generate results in C_result_data_in_startle
• D_mai20204laml_sub250 is the folder containing scripts to generate results in D_result_laml_sub250
• KPTracer-Data is the folder containing scripts to generate results in E_bio_result_pruned (Note the output directory was originally named bio_result, but we later renamed it).
• KPTracer-Data_deduplicate is the folder containing scripts to generate results in F_bio_result_deduplicate (Note the output directory was originally named bio_result_deduplicate, but we later renamed it).
• KPTracer-Data-prune-deduplicate is the folder containing scripts to generate results in G_bio_result_pruned_deduplicate.
• KPTracer-Data-Full_deprune_deduplicate the folder containing scripts to generate results in H_bio_result_Full.
• KPTracer-Data-Full_deduplicate is the the folder containing scripts to generate results in I_bio_result_Full_deduplicate.

Note that the final four directories are due to expanding the number of pipelines and number of KP-Tracer data sets. In particular, KPTracer-Data-Full_deduplicate and KPTracer-Data-Full_deprune_deduplicate contain scripts for analyzing KP-Tracer data set 3515_Lkb1_T1_Fam, whereas KPTracer-Data, KPTracer-Data_deduplicate, and KPTracer-Data-prune-deduplicate contain scripts for analyzing the other two KP-Tracer data sets. Likewise, the results for 3515_Lkb1_T1_Fam are in the folders I_bio_result_Full_deduplicate, and H_bio_result_Full, whereas the results for the other two KP-Tracer data sets are in the folders E_bio_result_pruned, F_bio_result_deduplicate, and G_bio_result_pruned_deduplicate. The reorganized KP-Tracer data are available in bio-result.tar.gz.

The input data are backup-ed in A_data.tar.gz. Also see the original files:

• Startle simulated data sets
• LAML simulated data sets
• KP-Tracer data sets