src/nt_composition/config.py: modification of get_density_file by adding a new parameter king to distinguish between density and distance figure

src/nt_composition/distance.py: script to check whether the co-localised exons have a nucleotide distance lower than randomly expected

src/nt_composition/make_nt_correlation.py: creation of new functions to create the correlation between the frequency of nucleotides within an exon and either the mean frequency of every co-localized exons or the frequency of nucleotide of one

src/find_interaction_cluster/__main__.py: modification of main_function by adding the new parameter html_fig

src/find_interaction_cluster/community_finder.py: creation of write_cytoscape_graph to create a cytoscape network + modification of find_communities to use this previous function. Modification of create_figure to use a new layout for a better display. Add parameter html_fig for community_finder and multiple_community_launcher functions

src/find_interaction_cluster/__main__.py: modification of main function to use multiple_community_launcher

src/find_interaction_cluster/config.py: add  new variables community_folder and cpu + modification of get_community_file for it to use community_folder variable

src/find_interaction_cluster/community_finder.py: creation of lighten_color and modification of find_communities to add some data to the communities find and to change the color of the communities in function of those data + creation of multiple_community_launcher to find communities for many projects or wieghts

src/find_interaction_cluster/community_finder.py: Script that seach communities whithin co-localisation network

src/find_interaction_cluster/__main__.py: launcher to execute the scripts in the submodule src/find_interaction_cluster

src/find_interaction_cluster/config.py: creation of a config file that store every variable used in the submodule src/find_interaction_cluster

src/nt_composition/make_nt_correlation.py: creation of get_select_addition and modification of get_project_colocalisation to get the weight of the edges in the network if needed

src/nt_composition/make_nt_correlation.py: add the parameter ft_type when get_density_recap is called in create_all_frequency_figures

src/nt_composition/make_nt_correlation.py: creation of a get_dic_co_regulated_exon, deletion of get_all_exon_interacting_with_another and get_interacting_exon and modification of create_density_table to get all co-localized exon interacting with another more efficiently

src/nt_composition/make_nt_correlation.py: modification of get_project_colocalisation function to keep or not the co-localisation comming from the same gene. And deletion of remove_exonsrc/nt_composition/make_nt_correlation.pyin_the_same_gene function

src/nt_composition/get_projects_interaction.py: add a new parameter, same_gene to choose whether or not to keep the co-localised exons within the same gene + modification of get_interaction_by_project function to use this new parameter

src/nt_composition/make_nt_correlation.py src/nt_composition/__main__.py: Creation of a new parameter same_gene allowing to remove or keep the co-localisation within the same gene

src/nt_composition/make_nt_correlation.py src/nt_composition/__main__.py: Add the parameters ft_type to chose the kind of feature to analyse

src/nt_composition/config.py : Creation of a get_feature function to recover the feature of interest

src/nt_composition/make_nt_correlation.py: add a global weight parameters to combine projects co-localisations

src/nt_composition/config.py: Creation of get_interaction_file and get_weight_folder function + modification of get_density_file and get_density_recap function

src/nt_composition/make_nt_correlation.py: takes now a weight corresponding to the number of time an interaction must be seen to be taken into account

src/nt_composition/get_projects_interaction.py: takes now a weight corresponding to the number of time an interaction must be seen to be taken into account

src/nt_composition/make_nt_correlation.py: Modification of create_all_frequency_figure to make the density figure for all chIA-PET projets