Data repository for modules 02 and 03 in Riddell V et al.

This data repository contains relevant input, intermediate, and output files produced in module "02-get-relative-abundance" and additional metadata files for module "03-predict-hosts" for Riddell V et al. Scripts related to these data can be found at https://github.com/jamesriddellv/Grantham_Bioreactor. Note that input and output file paths may need to be updated to reflect new file locations once downloaded. 02-get-relative-abundanceactive_MAGs_abundance_with_metadata.tsvactive_MAGs_list_no_prefix.txtactive_MAGs_list.txtall_proportions_reverse.txtcombined_pileup.csvdata_5x_rpk.csvgeTMM_table.csvgetmms_REV_1_gene_per_10kb_vOTUs_melted.tsvgetmms_REV_1_gene_per_10kb_vOTUs_wide.tsvgetmms_REV_1x_prop10_vOTUs_melted.tsvgetmms_REV_1x_prop10_vOTUs_wide.tsvgetmms_REV_1x_vOTUs_melted.tsvgetmms_REV_1x_vOTUs_wide.tsvgetmms_REV_5x_vOTUs_corrected_melted.tsvgetmms_REV_5x_vOTUs_corrected_wide (1).tsvgetmms_REV_5x_vOTUs_corrected_wide.tsvHILIC_LC_MS_MS.csvhtseq_vOTUs_100M_90FILTERED_REVSTRANDED.tsvMAG_abundance_table.xlsxmetaG_MAG_mean_97_75_75.tsvmetaG_sample_metadata.csvmetaG_vOTU_count_90_75.tsvmetaG_vOTU_trimmed_mean_90_75_10.tsvmetaT_sample_metadata.csvpresent_MAGs_abundance_with_metadata.tsvRP_LC_MS_MS.csvsample_metadata.csvvOTU_metadata_getmm.tsv 03-predict-hostsDate_and_version.logDetailed_output_by_tool.csvHost_prediction_to_genome_m90.csvHost_prediction_to_genus_m90.csv本数据集仓库包含了Riddell V等人研究中，模块"02-get-relative-abundance"生成的相关输入文件、中间文件与输出文件，以及模块"03-predict-hosts"的附加元数据文件。本数据集的相关配套脚本可访问https://github.com/jamesriddellv/Grantham_Bioreactor 获取。请注意，下载数据集后，需更新输入与输出文件的路径，以适配新的文件存储位置。 以下为各模块包含的文件列表： 1. 模块02-get-relative-abundance： active_MAGs_abundance_with_metadata.tsv、active_MAGs_list_no_prefix.txt、active_MAGs_list.txt、all_proportions_reverse.txt、combined_pileup.csv、data_5x_rpk.csv、geTMM_table.csv、getmms_REV_1_gene_per_10kb_vOTUs_melted.tsv、getmms_REV_1_gene_per_10kb_vOTUs_wide.tsv、getmms_REV_1x_prop10_vOTUs_melted.tsv、getmms_REV_1x_prop10_vOTUs_wide.tsv、getmms_REV_1x_vOTUs_melted.tsv、getmms_REV_1x_vOTUs_wide.tsv、getmms_REV_5x_vOTUs_corrected_melted.tsv、getmms_REV_5x_vOTUs_corrected_wide (1).tsv、getmms_REV_5x_vOTUs_corrected_wide.tsv、HILIC_LC_MS_MS.csv、htseq_vOTUs_100M_90FILTERED_REVSTRANDED.tsv、MAG_abundance_table.xlsx、metaG_MAG_mean_97_75_75.tsv、metaG_sample_metadata.csv、metaG_vOTU_count_90_75.tsv、metaG_vOTU_trimmed_mean_90_75_10.tsv、metaT_sample_metadata.csv、present_MAGs_abundance_with_metadata.tsv、RP_LC_MS_MS.csv、sample_metadata.csv、vOTU_metadata_getmm.tsv 2. 模块03-predict-hosts： Date_and_version.log、Detailed_output_by_tool.csv、Host_prediction_to_genome_m90.csv、Host_prediction_to_genus_m90.csv