Ruminotypes: Whole Ruminotypes dataset communities

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Description

Ruminotypes dataset contains communities (16_S, 18_S and Archaea) measuares from 65 loose-housed lactating Holstein cows. The study aims evaluating the relationships between communities and methane emmision yield

Format

A list with seven components:

16_S

matrix with 61 rows and 1198 columns. Each row represents a sample and each column represent one normalized OTU.

Archea

a matrix with 61 rows (samples) and 453 normalized columns (Archea IDs).

18_S

a matrix with 61 rows and 107 normalized columns (protozoa level).

phenotype

data frame with 61 rows and 5 columns representing methane emission levels with a set of corrections.

Taxa_16S

a matrix with 1198 rows and 9 columns indicating the Taxa information for 16_S OTU.

Taxa_18S

a matrix with 112 rows and 18 columns indicating the Taxa information for 18_S samples.

Taxa_Archea

a matrix with 453 rows and 7 columns indicating the Taxa information for archea samples.

References

Ramayo-Caldas Y, Zingaretti LM, Bernard A, Estell<c3><a9> J, Popova M, Pons N, Bellot P, Mach N, Rau A, Roume H, P<c3><a9>rez-Enciso M, Faverdin N, Edouard N, Dusko S, Morgavi DP, Renand G. Identification of rumen microbial biomarkers linked to methane emission in Holstein dairy cows In press.

Examples

data(Ruminotypes)

Example output

Loading required package: ggplot2

LinkHD documentation built on Nov. 8, 2020, 5:08 p.m.