Files for 'Phage-bacteria dynamics during the first years of life revealed by trans-kingdom marker gene analysis'

The archive contains most of the files that were used to generate the figures for "Phage-bacteria dynamics during the first years of life revealed by trans-kingdom marker gene analysis".

data/TGVG_database_v1.1.VC_taxonomy_table.csv

data/Marker-MAGu_virus_DB_v1.1_metadata.tsv

data/MP142_CASE_CNTRL_T1D_LIST1.csv

data/Mock_MSA1003_marker_magu_abundance_table1.tsv

data/TGVG_database_v1.1.exemplars.iphop_genus_outputs1.csv

data/TGVG_database_v1.1.exemplars.iphop_genus_outputs1.filt.csv

data/some_teddy_MP142_metadata2.all_samples1.delivery.csv

data/TGVG_database_v1.1.exemplars.iphop_genome_outputs1.csv

data/Mock_MSA1003_mpa4_abundance_table.txt

data/TGVG_database_v1.1.exemplars.bacphlip.tsv

data/MP142_CASE_CNTRL_IA_LIST1.csv

data/mp142_TGVG1.1_MPA4_combined_abundance_table_longform1.tsv

data/mp142_TEDDY_marker_gene_detection_out1.reads_by_sample.tsv

data/all_shuf_samples_samcov.tsv

data/gtdb_ncbi_taxonomy_map_summary.tsv

data/Mock_MSA1003_read_stats.tsv

data/marker_gene_vir_bac_specificity_sensitivity_tests1.csv

data/TGVG_database_v1.1.exemplars.iphop_genome_outputs1.filt.csv

data/TGVG_database_v1.1.crassvirales_tbl.tsv

data/TGVG_database_v1.1.checkv_completeness.tsv

For code, see: https://github.com/mtisza1/teddy_vir_bac_marker_gene