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Created with Raphaël 2.2.04Mar2128Feb2523161514111026Jan2524212019131176Dec15Nov12985229Oct251121Sep1716131Aug1913927Jul242221191716151413129876532129Jun2216141198312May107430Apr292323Mar19225Feb22179852127Jan25222120191815131275417Dec1627Nov2625242320191716629Oct28272625Sep24177Aug415Jul1063130Jun2625231918171210910Apr9627Mar26111096543Merge branch 'dev' of gitlab_lbmc:LBMC/regards/chia-pet_network into devsrc/find_interaction_cluster/Go_annotation/create_go_communities.py: list_file and list_name are now optional parameterssrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, modified required argument script_mode from True to Falsesrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, modified required argument script_mode from True to Falsesrc/figures_utils/obtain_data_factors.py: minor correction, adding a variable declarationsrc/figures_utils/nb_cluster_genes_st_lineplot.py: initial commit of this script that allows to study the cumulative increasing number of genes by communities and also the number of communities needed to reach 75% of the studied genessrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, add the l_name in the title of the figuresrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, change a misprint c -> C for the titlesrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, change the order of list_go_name to class go_name by number of genes from highest to lowest for BP, CC, C and MF in the case of script_mode=number_totsrc/figures_utils/study_of_gene_pair_interactions.py: minor correction, for this biological process: regulation of transmembrane receptor protein serine/threonine kinase signaling pathway, that have a / in its namesrc/figures_utils/study_of_gene_pair_interactions.py: initial commit of this script that allows to study the gene pair interactionssrc/figures_utils/obtain_data_factors.py: updates to add the parameter type in the get_every_events_4_a_go()src/figures_utils/obtain_data_factors.py: minor updatesrc/figures_utils/obtain_genes_interactions.py: initial commit of a script used to obtain two files (Hi-C and ChIA-PET), in which for each gene we have the list of genes with which it interactsMerge branch 'dev' of gitbio.ens-lyon.fr:LBMC/regards/chia-pet_network into devsrc/figures_utils/obtain_data_factors.py: initial commit of a script used to obtain the list of genes dependant by the SF, TF, EF, DF, L or go_termsrc/find_interaction_cluster/periodicity_analysis/create_heatmap.py: create periodicity heatmapsrc/find_interaction_cluster/periodicity_analysis/get_periodicity.py: minor change in get_pvalue_df functionsrc/find_interaction_cluster/periodicity_analysis/get_periodicity.py: fix periodicDNA methodsrc/find_interaction_cluster/periodicity_analysis/__init__.pysrc/find_interaction_cluster/periodicity_analysis/config.py: variable needed in this submodulesrc/find_interaction_cluster/periodicity_analysis/get_community_periodicity.py: script to get the periodicity of a list of communitysrc/find_interaction_cluster/periodicity_analysis/get_periodicity.py: pep8 changessrc/find_interaction_cluster/periodicity_analysis/get_periodicity.py: add multiprocessingsrc/find_interaction_cluster/periodicity_analysis/get_periodicity.py: new cyano method implementationsrc/find_interaction_cluster/periodicity_analysis/get_periodicity.py: script to comput periodicitysrc/db_utils/__main__.py: fill chia-pet databasesrc/db_utils/fill_TF_tables.py: fill TF tablessrc/db_utils/fill_TF_tables.py: new way to compute fasterDB idsrc/db_utils/fill_TF_tables.py: fix hgnc file used to convert gene_name to gene_symbolMerge branch 'dev' of gitlab_lbmc:LBMC/regards/chia-pet_network into devdb_utils/__main__.py: update of the __main__ script to add information in these tables: cin_project_ef, cin_export_event, cin_project_l, cin_localisation_event, cin_project_df and cin_decay_eventdb_utils/config.py: update of the config file to add information in these tables: cin_project_ef, cin_export_event, cin_project_l, cin_localisation_event, cin_project_df and cin_decay_eventdb_utils/db_creation.py: update of the database creation script to add these tables: cin_project_ef, cin_export_event, cin_project_l, cin_localisation_event, cin_project_df and cin_decay_eventdb_utils/fill_DF_tables.py: add this script to add the cin_project_df and cin_decay_event tables to the databasesrc/db_utils/fill_TF_tables.py: breaks creation of TF tablesrc/db_utils/fill_EF_tables.py: little modification of a function commentsrc/db_utils/fill_L_tables.py: add this script to add the cin_project_l and cin_localisation_event tables to the databaseMerge branch 'dev' of gitlab_lbmc:LBMC/regards/chia-pet_network into devget_project_colocalisation: script to find specific component signatures within communities