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Created with Raphaël 2.2.05May229Apr282622211531Mar181542128Feb2523161514111026Jan2524212019131176Dec15Nov12985229Oct251121Sep1716131Aug1913927Jul242221191716151413129876532129Jun2216141198312May107430Apr292323Mar19225Feb22179852127Jan25222120191815131275417Dec1627Nov2625242320191716629Oct28272625Sep24177Aug415Jul1063130Jun2625231918171210910Apr9627Mar26111096543src/find_interaction_cluster/Heatmap_composition/config.py: Add periodic_dic parametersrc/find_interaction_cluster/Heatmap_composition/get_signature_graph.py: add related input parametersrc/find_interaction_cluster/Heatmap_composition/get_signature_graph.py: add display parametersrc/find_interaction_cluster/Heatmap_composition/get_signature_graph.py: major change to display signature cluster by clustersrc/find_interaction_cluster/Heatmap_composition/get_signature_graph.py: change ouput graph namesrc/find_interaction_cluster/Heatmap_composition/get_signature_graph.py: script to display siganture as a graphMerge branch 'dev' of gitlab_lbmc:LBMC/regards/chia-pet_network into devsrc/find_interaction_cluster/Heatmap_composition/get_signature.py: fix get_simplified_signature_table to avoid bugs if not all nucleotides check for an enrichment were checked for periodicitysrc/figures_utils/nb_cluster_genes_st.py: minor changessrc/figures_utils/nb_cluster_genes_st.py: minor correctionssrc/figures_utils/stat_impact_factors_on_communities.py: update of this script to launch it on several filessrc/figures_utils/stat_impact_factors_on_communities.py: update of this script to launch it on several filessrc/figures_utils/nb_cluster_genes_st.py: update of this script to laucn it on MF, C, CC, ...src/figures_utils/config_figures.py: update to launch the stat_impact_factors_on_communities.py scriptMerge branch 'dev' of gitlab_lbmc:LBMC/regards/chia-pet_network into devsrc/figures_utils/stat_impact_factors_on_communities.py: initial commit of this script to study if communities are often regulated by factorssrc/figures_utils/obtain_data_factors.py: update to remove the final error with go term analysissrc/figures_utils/nb_cluster_genes_st_lineplot.py: update to add the number of genes by communitysrc/find_interaction_cluster/Heatmap_composition/create_signature.py: fix script to be able to launch the creation of signature filesrc/find_interaction_cluster/Heatmap_composition/create_signature.py: create the spatial clusters signaturesrc/find_interaction_cluster/Heatmap_composition/merge_signature.py: merge signature of the same spatial cluuster but with different component typesrc/find_interaction_cluster/Heatmap_composition/config.py: add a config filesrc/find_interaction_cluster/Heatmap_composition/get_signature.py: Add periodicity signature to cluster if it exists + Change in the way the cluster signature is displayed in resultssrc/figures_utils/nb_cluster_genes_st.py: update to add the community gene countsrc/figures_utils/config_figures.py: many updates of variables to launch scripts of the directory figures_utilssrc/figures_utils/obtain_infos_launch_heatmap_figures.py: initial commit of this script that allows to obtain the text files necessary to launch the src/find_interaction_cluster/heatmap_cluster scriptsrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, modified required arguments data_type and output_folder from True to FalseMerge branch 'dev' of gitlab_lbmc:LBMC/regards/chia-pet_network into devadd test filessrc/find_interaction_cluster/Go_annotation/__main__.py: add a nofilter parametersrc/find_interaction_cluster/Go_annotation/create_go_communities.py: increase performance of create_go_dic function + add no filter parameter on create_community_files_selected_go_term and create_community_files functionsrc/find_interaction_cluster/Go_annotation/graph_functions.py: add a parameter nofilter on load_update_graph functionsrc/find_interaction_cluster/Go_annotation/filter_community_files.py: tool to filter out genes from a community filesrc/find_interaction_cluster/periodicity_analysis/get_community_periodicity.py: add a parameter methodsrc/find_interaction_cluster/periodicity_analysis/create_heatmap.py: create score heatmapsrc/find_interaction_cluster/homogenous_frequencies_across_communities.py: handle randomization test for multiple communitiessrc/find_interaction_cluster/radomization_test_ppi.py: update get_pvalue fonction to handle nan valuessrc/logging_conf.py: change logging conf mode from 'w' to 'a'requirements.txt: update plotly versionsrc/find_interaction_cluster/Heatmap_composition/compo_heatmap.py: modify this script to add the possibility to use a list CUSTOM of genes controls, written in the file_ctrl