Clinical and microbiome data derived from "Microbiota-based model improves
the sensitivity of fecal immunochemical test for detecting colonic lesions"
by Baxter et al. (2016). These data represent a subset of 172 health
participants. baxter_clinical contains 8 clinical variables for each of the
participants: sample_name, id, age, bmi, gender, height,
total_reads, and disease_state (all H for healthy). baxter_otu has
1,234 columns, where each columns represent an Operational Taxonomic Unit
(OTU). OTUs are species-like relationships among bacteria determined by
analyzing their RNA. The cells are logged counts for how often the OTU was
detected in a participant's stool sample. Each column name is a shorthand
name, e.g. otu1; you can find the true name of the OTU mapped in
baxter_data_dictionary. baxter_family and baxter_genus are also logged
counts but instead group OTUs at the family and genus level, respectively, a
common approach to reducing microbiome data. Likewise, the column names are
shorthands, which you can find mapped in baxter_data_dictionary.
baxter_clinical
baxter_otu
baxter_family
baxter_genus
baxter_data_dictionary5 data frames
An object of class tbl_df (inherits from tbl, data.frame) with 172 rows and 1234 columns.
An object of class tbl_df (inherits from tbl, data.frame) with 172 rows and 35 columns.
An object of class tbl_df (inherits from tbl, data.frame) with 172 rows and 82 columns.
An object of class tbl_df (inherits from tbl, data.frame) with 1351 rows and 3 columns.
Baxter et al. (2016) doi:10.1186/s13073-016-0290-3