Name	Name	Last commit message	Last commit date
Latest commit History 115 Commits
mutation_clusters	mutation_clusters
BAF_second_filter.py	BAF_second_filter.py
CN_data_2expands_fm_results7.py	CN_data_2expands_fm_results7.py
Mary_data.py	Mary_data.py
Python program structure.pptx	Python program structure.pptx
README.md	README.md
SNP2Expands.py	SNP2Expands.py
SNPFilterFinder_bloodBEdiff.py	SNPFilterFinder_bloodBEdiff.py
analyze_expands_inpatient_congruence.py	analyze_expands_inpatient_congruence.py
assemble_ploidy_evidence.py	assemble_ploidy_evidence.py
branch_lengths_and_signature_calculator.py	branch_lengths_and_signature_calculator.py
calculate_diploid_likelihood.py	calculate_diploid_likelihood.py
calculate_joint_histograms.py	calculate_joint_histograms.py
calculate_joint_scatterplots.py	calculate_joint_scatterplots.py
calculate_kanika_odds.py	calculate_kanika_odds.py
calculate_odds.py	calculate_odds.py
calculate_position_histograms_by_length.py	calculate_position_histograms_by_length.py
calibrate_CN_histograms.py	calibrate_CN_histograms.py
calibrate_CN_values.py	calibrate_CN_values.py
check_95_ratio.py	check_95_ratio.py
check_expands_disjoint.py	check_expands_disjoint.py
check_expands_trees.py	check_expands_trees.py
check_unequal_cns.py	check_unequal_cns.py
check_xiaohong_cnloh.py	check_xiaohong_cnloh.py
check_xiaohong_distances.py	check_xiaohong_distances.py
choose_best_analysis.py	choose_best_analysis.py
cluster_VAFs.py	cluster_VAFs.py
cluster_VAFs_422.py	cluster_VAFs_422.py
cluster_VAFs_Mary.py	cluster_VAFs_Mary.py
collect_maxps.py	collect_maxps.py
collect_purity_ploidy.py	collect_purity_ploidy.py
collect_spstats_noise.py	collect_spstats_noise.py
compareXiaohongToAscat.py	compareXiaohongToAscat.py
compare_19578.py	compare_19578.py
compare_1M_probe_sets.py	compare_1M_probe_sets.py
compare_CN_estimates.py	compare_CN_estimates.py
compare_SV_groups_to_trees.py	compare_SV_groups_to_trees.py
compare_groups_and_trees.py	compare_groups_and_trees.py
compare_joint_segs.py	compare_joint_segs.py
compare_probe_sets.py	compare_probe_sets.py
convertXiaohongToEvents.py	convertXiaohongToEvents.py
count_ploidy_evidence.py	count_ploidy_evidence.py
count_shared_vs_VAF.py	count_shared_vs_VAF.py
create_ASCAT_histograms.py	create_ASCAT_histograms.py
create_BAF_segments_rejoined.py	create_BAF_segments_rejoined.py
create_BEAST_input.py	create_BEAST_input.py
create_CN-BAF_histograms.py	create_CN-BAF_histograms.py
create_CN-BAF_segments.py	create_CN-BAF_segments.py
create_combined_pASCAT_input.py	create_combined_pASCAT_input.py
create_delgains_from_BEAST.py	create_delgains_from_BEAST.py
create_diseq_histograms.py	create_diseq_histograms.py
create_expands_input.py	create_expands_input.py
create_full_expands_input.py	create_full_expands_input.py
create_joint_seg_file.py	create_joint_seg_file.py
create_new_BEAST_input.py	create_new_BEAST_input.py
create_pASCAT_input.py	create_pASCAT_input.py
create_ploidy_estimates_from_pASCAT.py	create_ploidy_estimates_from_pASCAT.py
create_rejoined_histograms.py	create_rejoined_histograms.py
create_seglength_histograms.py	create_seglength_histograms.py
distribute_BEAST.py	distribute_BEAST.py
estimate_gamma.py	estimate_gamma.py
exome2Expands.py	exome2Expands.py
extract_CN_from_Jabba.py	extract_CN_from_Jabba.py
findVAFHistogramPeaks.py	findVAFHistogramPeaks.py
find_SNP_groups.py	find_SNP_groups.py
find_VAF_peaks.py	find_VAF_peaks.py
find_deletions.py	find_deletions.py
find_dupes.py	find_dupes.py
find_example_loss.py	find_example_loss.py
find_example_loss_rejoined.py	find_example_loss_rejoined.py
find_p16.py	find_p16.py
four_gamete_persample.py	four_gamete_persample.py
four_gamete_test.py	four_gamete_test.py
full_segmentation_analysis.py	full_segmentation_analysis.py
full_segmentation_by_position_creator.py	full_segmentation_by_position_creator.py
full_segmentation_histogram_creator.py	full_segmentation_histogram_creator.py
getCNVs.py	getCNVs.py
getChromosomeCentromere.py	getChromosomeCentromere.py
get_noninteger_CN_from_ASCAT.py	get_noninteger_CN_from_ASCAT.py
hand_cluster_mutation_vecs.py	hand_cluster_mutation_vecs.py
highlownoisevals.py	highlownoisevals.py
lucianSNPLibrary.py	lucianSNPLibrary.py
makeBoxPlotForPatty.py	makeBoxPlotForPatty.py
make_VAF_histograms.py	make_VAF_histograms.py
make_gamma_test_sge_files.py	make_gamma_test_sge_files.py
make_overlap_probesets.py	make_overlap_probesets.py
make_overlap_three_probesets.py	make_overlap_three_probesets.py
make_pASCAT_sge_files.py	make_pASCAT_sge_files.py
make_phylip_levels_parsimony_input.py	make_phylip_levels_parsimony_input.py
make_phylip_parsimony_input.py	make_phylip_parsimony_input.py
make_phylip_seqboot_input.py	make_phylip_seqboot_input.py
make_run_thinned.py	make_run_thinned.py
make_shuffled_directories.py	make_shuffled_directories.py
makeround2.py	makeround2.py
mary_VAFHistogramPeaks.py	mary_VAFHistogramPeaks.py
median_calc.py	median_calc.py
new_cluster_VAFs.py	new_cluster_VAFs.py
new_mutation.py	new_mutation.py
output_teeth_stomach_statuses.py	output_teeth_stomach_statuses.py
p_rawsegs.py	p_rawsegs.py

Name

Last commit message

Last commit date

115 Commits

mutation_clusters

BAF_second_filter.py

CN_data_2expands_fm_results7.py

Mary_data.py

Python program structure.pptx

README.md

SNP2Expands.py

SNPFilterFinder_bloodBEdiff.py