GitHub - shug3502/mRNA: Fine-grained modelling of dynamics of mRNA complexes in Drosophila nurse cells

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Fine-grained modelling of dynamics of mRNA complexes in Drosophila nurse cells

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Name		Name	Last commit message	Last commit date
Latest commit History 260 Commits
Coarse-graining		Coarse-graining
Figures_for_writeup		Figures_for_writeup
Model_comparison		Model_comparison
Write-up-copy		Write-up-copy
Writeup		Writeup
histcn		histcn
inference_for_mrna		inference_for_mrna
proposal		proposal
.DS_Store		.DS_Store
.gitignore		.gitignore
ABC_APMC.m		ABC_APMC.m
ABC_APMC_testing.m		ABC_APMC_testing.m
ABC_RS_knn.m		ABC_RS_knn.m
ABC_RS_knn_production.m		ABC_RS_knn_production.m
ABC_Weights_depend_on_dist.m		ABC_Weights_depend_on_dist.m
ABC_decription.tex		ABC_decription.tex
ABC_knn.m		ABC_knn.m
ABC_population_monte_carlo.m		ABC_population_monte_carlo.m
ABC_rejection_sampling.m		ABC_rejection_sampling.m
ABC_testing.m		ABC_testing.m
ABC_theta_read_from_R.dat		ABC_theta_read_from_R.dat
ABC_theta_store_N100_APMC.txt		ABC_theta_store_N100_APMC.txt
ABC_theta_store_N100_RS.txt		ABC_theta_store_N100_RS.txt
ABC_theta_store_N100_Weights.txt		ABC_theta_store_N100_Weights.txt
ABC_theta_store_N100_read_from_R_APMC.txt		ABC_theta_store_N100_read_from_R_APMC.txt
ABC_theta_store_N100_read_from_R_RS.txt		ABC_theta_store_N100_read_from_R_RS.txt
ABC_theta_store_N500_paccmin_0.05.txt		ABC_theta_store_N500_paccmin_0.05.txt
Auto_heatmap_plot.png		Auto_heatmap_plot.png
Auto_heatmap_plot_v2.png		Auto_heatmap_plot_v2.png
Auto_heatmap_plot_v3.png		Auto_heatmap_plot_v3.png
Auto_hist_plot.png		Auto_hist_plot.png
Auto_hist_plot_v2.png		Auto_hist_plot_v2.png
Auto_hist_plot_v3.png		Auto_hist_plot_v3.png
Comparison_of_ABC_methods.txt		Comparison_of_ABC_methods.txt
Comparison_of_ABC_methods_N10000.txt		Comparison_of_ABC_methods_N10000.txt
Comparison_of_ABC_methods_N100_APMC.txt		Comparison_of_ABC_methods_N100_APMC.txt
Comparison_of_ABC_methods_N100_RS.txt		Comparison_of_ABC_methods_N100_RS.txt
Comparison_of_ABC_methods_N100_Weights.txt		Comparison_of_ABC_methods_N100_Weights.txt
Comparison_of_ABC_methods_N100_summarys_edited.txt		Comparison_of_ABC_methods_N100_summarys_edited.txt
Comparison_of_ABC_methods_N500_paccmin_0.05.txt		Comparison_of_ABC_methods_N500_paccmin_0.05.txt
Comparison_of_ABC_methods_New_method.txt		Comparison_of_ABC_methods_New_method.txt
Comparison_of_ABC_methods_New_method_repeats100.txt		Comparison_of_ABC_methods_New_method_repeats100.txt
Comparison_of_ABC_methods_longer.txt		Comparison_of_ABC_methods_longer.txt
Comparison_of_ABC_methods_low_alpha_repeats100.txt		Comparison_of_ABC_methods_low_alpha_repeats100.txt
Comparison_of_ABC_methods_lower_paccmin.txt		Comparison_of_ABC_methods_lower_paccmin.txt
Comparison_of_ABC_methods_more_repeats.txt		Comparison_of_ABC_methods_more_repeats.txt
Comparison_of_ABC_methods_paccmin001.txt		Comparison_of_ABC_methods_paccmin001.txt
Comparison_of_ABC_methods_prior.txt		Comparison_of_ABC_methods_prior.txt
Comparison_of_ABC_methods_symmetrickl.txt		Comparison_of_ABC_methods_symmetrickl.txt
Comparison_of_ABC_methods_test.txt		Comparison_of_ABC_methods_test.txt
Comparison_of_ABC_methods_timing.txt		Comparison_of_ABC_methods_timing.txt
JonathanHarrisonProject1.pdf		JonathanHarrisonProject1.pdf
Modelling_of_mRNA_Harrison_1st_draft.pdf		Modelling_of_mRNA_Harrison_1st_draft.pdf
Modelling_of_mRNA_localization_Harrison_2nd_draft.pdf		Modelling_of_mRNA_localization_Harrison_2nd_draft.pdf
Modelling_of_mRNA_writeup_template_backup.tex		Modelling_of_mRNA_writeup_template_backup.tex
MyContourPlots.r		MyContourPlots.r
PlotContours.m		PlotContours.m
QuadraticChi.m		QuadraticChi.m
Results_new_method.txt		Results_new_method.txt
Sample_From_Prior.m		Sample_From_Prior.m
Sample_From_Some_Gaussian.m		Sample_From_Some_Gaussian.m
Simplest_ABC.m		Simplest_ABC.m
Simplest_ABC_output.txt		Simplest_ABC_output.txt
Simplest_ABC_output2.txt		Simplest_ABC_output2.txt
Simplest_ABC_with_moments.m		Simplest_ABC_with_moments.m
Simplest_ABC_with_moments_errors.txt		Simplest_ABC_with_moments_errors.txt
Simplest_ABC_with_moments_output.txt		Simplest_ABC_with_moments_output.txt
Simplest_ABC_with_moments_output1.txt		Simplest_ABC_with_moments_output1.txt
Simplest_ABC_with_moments_output2.txt		Simplest_ABC_with_moments_output2.txt
Simplest_ABC_with_moments_output25.txt		Simplest_ABC_with_moments_output25.txt
Simplest_ABC_with_moments_output3.txt		Simplest_ABC_with_moments_output3.txt
Simplest_ABC_with_moments_output4.txt		Simplest_ABC_with_moments_output4.txt
Temp_auto_heatmap_plot.eps		Temp_auto_heatmap_plot.eps
Temp_auto_hist_plot.eps		Temp_auto_hist_plot.eps
VJP_repeated_fwd_simulate.m		VJP_repeated_fwd_simulate.m
VJ_nucleus.c		VJ_nucleus.c
Volume_Measurements_NurseCell.numbers		Volume_Measurements_NurseCell.numbers
attempt2_at_pdepe.m		attempt2_at_pdepe.m
backward_euler_advection.m		backward_euler_advection.m
bin_posterior.m		bin_posterior.m
calculate_entropy.m		calculate_entropy.m
calculate_population_statistics.m		calculate_population_statistics.m
compare_posterior_qualities.m		compare_posterior_qualities.m
compare_posterior_qualities_single_version.m		compare_posterior_qualities_single_version.m
distance_metric.m		distance_metric.m
drawCube.m		drawCube.m
ellipse.m		ellipse.m
estimators_for_perfect_data.m		estimators_for_perfect_data.m
evaluate_and_plot_entropy_summary_stat.m		evaluate_and_plot_entropy_summary_stat.m
evaluate_jump_lengths.m		evaluate_jump_lengths.m
evaluate_mfpt.m		evaluate_mfpt.m
evaluate_mfpt_simpler_version.m		evaluate_mfpt_simpler_version.m
evaluate_mfpt_simpler_version_3D.m		evaluate_mfpt_simpler_version_3D.m
evaluate_mfpt_thesis.m		evaluate_mfpt_thesis.m
example2.m		example2.m
findPattern2.m		findPattern2.m
generate_3D_stats.m		generate_3D_stats.m
gillespie1.py		gillespie1.py
gillespie2.py		gillespie2.py
histcn.m		histcn.m