reverting to old modisco waiting for test

kundajelab · Dec 10, 2022 · 44a696b · 44a696b
1 parent 833a189
commit 44a696b
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Showing 2 changed files with 4 additions and 13 deletions.
diff --git a/step5_interpret_bias_model.sh b/step5_interpret_bias_model.sh
@@ -38,8 +38,5 @@ chrombpnet_deepshap \
 
 ## modisco run
 
-modisco motifs -i $output_dir"/bias.profile_scores.h5" -n 50000 -o "modisco_results_allChroms_profile.hdf5" -w 500
-modisco motifs -i $output_dir"/bias.counts_scores.h5" -n 50000 -o "modisco_results_allChroms_counts.hdf5" -w 500
-
-modisco report -i "modisco_results_allChroms_profile.hdf5" -o  $output_dir/modisco_reports_profile/ -m /home/anusri/chrombpnet/data/motifs.meme.txt
-modisco report -i "modisco_results_allChroms_counts.hdf5" -o  $output_dir/modisco_reports_counts/ -m /home/anusri/chrombpnet/data/motifs.meme.txt
+chrombpnet_modisco -s $output_dir/bias -p "profile" -o $output_dir -m 50000 -c 500
+chrombpnet_modisco -s $output_dir/bias -p "counts" -o $output_dir -m 50000 -c 500
diff --git a/step7_interpret_chrombpnet_model.sh b/step7_interpret_chrombpnet_model.sh
@@ -39,11 +39,5 @@ chrombpnet_deepshap \
 
 ## modisco run
 
-#chrombpnet_modisco -s $output_dir/corrected -p "profile" -o $output_dir -m 50000 -c 500
-#chrombpnet_modisco -s $output_dir/corrected -p "counts" -o $output_dir -m 50000 -c 500
-
-modisco motifs -i $output_dir"/corrected.profile_scores.h5" -n 50000 -o "modisco_results_allChroms_profile.hdf5" -w 500
-modisco motifs -i $output_dir"/corrected.counts_scores.h5" -n 50000 -o "modisco_results_allChroms_counts.hdf5" -w 500
-
-modisco report -i "modisco_results_allChroms_profile.hdf5" -o  $output_dir/modisco_reports_profile/ -m /home/anusri/chrombpnet/data/motifs.meme.txt
-modisco report -i "modisco_results_allChroms_counts.hdf5" -o  $output_dir/modisco_reports_counts/ -m /home/anusri/chrombpnet/data/motifs.meme.txt
+chrombpnet_modisco -s $output_dir/corrected -p "profile" -o $output_dir -m 50000 -c 500
+chrombpnet_modisco -s $output_dir/corrected -p "counts" -o $output_dir -m 50000 -c 500