Article - MPS-Sampling

All the data about the article of MPS-Sampling.MPS-Samping (data of the analysis from MPS-Sampling)ADB (Artificial genomes generated from RiboDB data)datafasta.tar.gz (a file to unzip, containing all the protein sequences from GTDB)genome_index (the index csv file used by MPS-Sampling)SamplesSample_X (a directory for each tested sample)inputgenome_index (the index csv file used by MPS-Sampling)output4.MPS_results_directorye_value_1e-05_cov_mode_0_min_cov_0.8_min_seq_id_0.6delta_0.4MPS_links.csv (A file with two columns, containing the link between each original genome (first column) and its MPS-representative (second column).)MPS_representatives.csv (A file with one column, contain the MPS-representatives chosen by MPS-Sampling.)GTDB (Genome-Based Database)inputfasta.tar.gz (a file to unzip, containing all the protein sequences from GTDB)genome_index.csv (the index csv file used by MPS-Sampling)output4.MPS_results_directorye_value_1e-05_cov_mode_0_min_cov_0.8_min_seq_id_0.6delta_X (There is a directory for each delta from {0.05, 0.1, ... , 0.95, 1}.)MPS_links.csv (A file with two columns, containing the link between each original genome (first column) and its MPS-representative (second column).)MPS_representatives.csv (A file with one column, contain the MPS-representatives chosen by MPS-Sampling.)RiboDB (Ribosomal Database)inputfasta.tar.gz (a file to unzip, containing all the protein sequences from RiboDB, after filtering)genome_index.csv (the index csv file used by MPS-Sampling)output4.MPS_results_directorye_value_1e-05_cov_mode_0_min_cov_0.8_min_seq_id_0.6delta_X (There is a directory for each delta from {0.05, 0.1, ... , 0.95, 1}.)MPS_links.csv (A file with two columns, containing the link between each original genome (first column) and its MPS-representative (second column).)MPS_representatives.csv (A file with one column, contain the MPS-representatives chosen by MPS-Sampling.)phylogeny (data about the phylogenetic inference)Bacillaceaeconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)Bacterial backboneconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)Enterobacteriaceaeconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)Lactobacillaceaeconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)<br>