FitnessInference:谱系树上叶子的预测适应度
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2021-06-07
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FitnessInference-master.zip （69个子文件） 
FitnessInference-master 
.gitignore 1KB toydata src translate_binary_fasta.py 550B annotate_toy_data.py 943B analyze_toy_data_polarizer.py 3KB analyze_toy_data.py 3KB flusim.cpp 6KB figure_scripts Fig2_supplements.py 6KB Fig3_polarizer.py 6KB Fig5_propagator_illustration.py 4KB analysis_utils_toy_data.py 5KB Fig2_toy_data_fitness_inference.py 5KB submit_scripts submit_script.py 961B run_flu_simulation.py 987B run_missing_flu_simulation.py 705B run_sim_flu_analysis.py 1KB remove_analysis_files.py 204B rename_files.py 617B run_missing_sim_flu_analysis.py 1KB analyze_multiple_toy_data.py 449B LICENSE 1KB flu data 
H3N2_annotations.pickle.gz 1.04MB H3N2_HA1_all_years_filtered.fasta.gz 460KB src analyze_correlation.py 4KB clade_frequency_correlations.py 5KB prediction_statistics.py 4KB test_flu_prediction.py 15KB polarizer_statistics.py 4KB dfit_mutations_correlations_polarizer.py 3KB predict_flu.py 14KB analyze_HA1.py 6KB analysis_may_feb.tar.gz 4.47MB sequence_and_annotations get_optimal_seqs.py 3KB make_annotations_file_gisaid.py 3KB muscle_combine_alignments.py 767B count_strains_by_year_region.py 3KB find_duplicates.py 1KB add_sequence_to_file.py 905B filter_gisaid_by_full_date.py 1KB get_L_L_H3N2_predictions.py 1KB curate_HA1_seqs.py 898B root_tree.py 792B make_list_of_places.py 2KB remove_outliers_from_seqs.py 720B muscle_batch_align.py 288B make_annotations_file.py 3KB muscle_script.sh 34B figure_scripts fig4_s1_parameter_dependence.py 6KB flu_figures_inference.py 13KB flu_figures_polarizer.py 10KB T1_delta_fitness_mutation_table.py 4KB analysis_utils.py 6KB flu_examples_fig4ab_polarizer.py 4KB flu_examples_fig4ab_inference.py 4KB submit_scripts run_missing_flu_prediction.py 2KB run_flu_prediction.py 1KB make_flu_trees.py 1KB infer_fitness.py 6KB examples H3N2_2013-5-1_2014-2-28.fasta.gz 8KB H3N2_2012-5-1_2013-2-28.fasta.gz 10KB mers_seqs_20140818.fasta.gz 100KB README.md 4KB rank_sequences.py 6KB prediction_src node_ranking.py 10KB ancestral.py 9KB solve_survival.py 12KB tree_utils.py 12KB fitness_inference.py 14KB sequence_ranking.py 11KB README 2KB资源评论
