bin/metafun
share/metafun/config/nextflow.config
share/metafun/db/download_db_metafun.py
share/metafun/help/assembly_binning.txt
share/metafun/help/bin_assessment.txt
share/metafun/help/comparative_annotation.txt
share/metafun/help/genome_selector.txt
share/metafun/help/imca.txt
share/metafun/help/interactive_comparative.txt
share/metafun/help/interactive_network.txt
share/metafun/help/interactive_strain.txt
share/metafun/help/interactive_taxonomy.txt
share/metafun/help/logo.sh
share/metafun/help/logo.txt
share/metafun/help/param_map.cfg
share/metafun/help/rawread_qc.txt
share/metafun/help/slant_logo_assembly_binning.txt
share/metafun/help/slant_logo_bin_assessment.txt
share/metafun/help/slant_logo_comparative_annotation.txt
share/metafun/help/slant_logo_genome_selector.txt
share/metafun/help/slant_logo_imca.txt
share/metafun/help/slant_logo_imwt.txt
share/metafun/help/slant_logo_interactive_network.txt
share/metafun/help/slant_logo_interactive_strain.txt
share/metafun/help/slant_logo_rawread_qc.txt
share/metafun/help/slant_logo_wms_function.txt
share/metafun/help/slant_logo_wms_strain.txt
share/metafun/help/slant_logo_wms_taxonomy.txt
share/metafun/help/wms_function.txt
share/metafun/help/wms_strain.txt
share/metafun/help/wms_taxonomy.txt
share/metafun/nf_scripts/ASSEMBLY_BINNING_apptainer.nf
share/metafun/nf_scripts/BIN_ASSESSMENT_apptainer.nf
share/metafun/nf_scripts/COMPARATIVE_ANNOTATION_apptainer.nf
share/metafun/nf_scripts/RAWREAD_QC_apptainer.nf
share/metafun/nf_scripts/WMS_FUNCTION_apptainer.nf
share/metafun/nf_scripts/WMS_STRAIN_apptainer.nf
share/metafun/nf_scripts/WMS_TAXONOMY_apptainer.nf
share/metafun/scripts/BrackentaxID_GTDBtaxa_completed.csv
share/metafun/scripts/CARD_visualization.R
share/metafun/scripts/Checkm2_GUNC_combine_quality_pass.py
share/metafun/scripts/GTDB_add2_check2gunc.py
share/metafun/scripts/KO_Genome_long2matrix.py
share/metafun/scripts/KO_Genome_long2matrix_ppanggolin205.py
share/metafun/scripts/KO_definition_GeneID_countgenomes.py
share/metafun/scripts/KO_module_visualization_apptainer.R
share/metafun/scripts/VFDB_visualization.R
share/metafun/scripts/add_VFDB_togenePA.py
share/metafun/scripts/add_VFDB_togenecount.py
share/metafun/scripts/add_rgi_togenePA.py
share/metafun/scripts/combine_bracken_outputs.py
share/metafun/scripts/combine_metadata_WMS_genome.py
share/metafun/scripts/combine_metadata_WMS_genome_old.py
share/metafun/scripts/combine_metadata_user_genome.py
share/metafun/scripts/convert_species_TAXID_merged_syhph_mpa.py
share/metafun/scripts/dash_MAG3.py
share/metafun/scripts/dbcan_result_parse.py
share/metafun/scripts/dbcan_visualization.R
share/metafun/scripts/extract_frac_combined_bracken.py
share/metafun/scripts/genome_PA_stat.py
share/metafun/scripts/gtdbr220_taxonomy_list_TaxID.tsv
share/metafun/scripts/humann3_visualization.R
share/metafun/scripts/kofam_to_geneID_KO.py
share/metafun/scripts/kofam_to_geneID_KO_ppanggolin205.py
share/metafun/scripts/make_gene_count_table_ppanggolin205.py
share/metafun/scripts/make_scoary_binary_trait.py
share/metafun/scripts/phyloseq_WMS_taxa_analysis.R
share/metafun/scripts/phyloseq_creation.R
share/metafun/scripts/shiny_COMPARATIVE_ANNOTATION.R
share/metafun/scripts/shiny_network/app.R
share/metafun/scripts/shiny_network/data/sample_phyloseq.RDS
share/metafun/scripts/shiny_network/helper/centrality_metrics.R
share/metafun/scripts/shiny_network/helper/data_conversion.R
share/metafun/scripts/shiny_network/helper/fast_correlation.R
share/metafun/scripts/shiny_network/helper/fastspar_wrapper.R
share/metafun/scripts/shiny_network/helper/flashweave_wrapper.R
share/metafun/scripts/shiny_network/helper/network_utils.R
share/metafun/scripts/shiny_network/helper/plot_download_helper.R
share/metafun/scripts/shiny_network/modules/data_loading_module.R
share/metafun/scripts/shiny_network/modules/filtering_module.R
share/metafun/scripts/shiny_network/modules/influential_nodes_module.R
share/metafun/scripts/shiny_network/modules/network_analysis_module.R
share/metafun/scripts/shiny_network/modules/network_robustness_module.R
share/metafun/scripts/shiny_network/modules/network_visualization_module.R
share/metafun/scripts/shiny_strain/app.R
share/metafun/scripts/shiny_strain/helper/error_handlers.R
share/metafun/scripts/shiny_strain/helper/plot_customization.R
share/metafun/scripts/shiny_strain/modules/diversity_pnps_correlation_module.R
share/metafun/scripts/shiny_strain/modules/gene_level_pnps_module.R
share/metafun/scripts/shiny_strain/modules/gene_level_pnps_preprocessing_optimized.R
share/metafun/scripts/shiny_strain/modules/nucleotide_diversity_module.R
share/metafun/scripts/shiny_strain/modules/nucleotide_diversity_stats_helpers.R
share/metafun/scripts/shiny_strain/modules/pnps_module_quick.R
share/metafun/scripts/shiny_strain/modules/pnps_preprocessing_optimized.R
share/metafun/scripts/shiny_strain/modules/preprocessing_scripts.R
share/metafun/scripts/shiny_strain/modules/shared_taxa_module.R
share/metafun/scripts/skani_visualization.R
share/metafun/scripts/sylph-utils/LICENSE
share/metafun/scripts/sylph-utils/README.md
share/metafun/scripts/sylph-utils/gtdbr220_taxonomy_list_TaxID.tsv
share/metafun/scripts/sylph-utils/merge_sylph_taxprof.py
share/metafun/scripts/sylph-utils/sylph_to_taxprof.py
share/metafun/sif_images/.placeholder
