plot_taxa_growthMeasures_associations: Plot individual taxa against growth measure.

In rbarner/rapidInfantGrowthMB: Determines Association Between Infant Microbiome At 1 Month And Rapid Growth Status From Birth To 12 months

Description

Create scatter plots of taxa and growth measure with a regression line.

Usage

plot_taxa_growthMeasures_association(taxaOfInterest = "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Pseudomonadales",taxaOfInterestTitle = "Logged Abundance of Pseudomonadales", measureOfInterest = "inf_weight_kg_12m", measureOfInterestTitle = "12-Month Weight (kg)")

Arguments

taxaOfInterest	Name of taxa that is the independent variable. Default is "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Pseudomonadales". Other options are strictly: "k__Bacteria| p__Firmicutes| c__Bacilli| o__Lactobacillales| f__Enterococcaceae", "k__Bacteria| p__Firmicutes| c__Clostridia| o__Clostridiales| f__Lachnospiraceae| g__Blautia", "k__Bacteria| p__Firmicutes| c__Clostridia| o__Clostridiales| f__Ruminococcaceae| g__Unclassified", "k__Bacteria| p__Proteobacteria| c__Deltaproteobacteria| o__Desulfovibrionales| f__Desulfovibrionaceae", "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Enterobacteriales| f__Enterobacteriaceae| g__Enterobacter", "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Enterobacteriales| f__Enterobacteriaceae| g__Klebsiella", "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Enterobacteriales| f__Enterobacteriaceae| g__Salmonella", "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Pseudomonadales"
taxaOfInterestTitle	Name of x label that matches the independent variable. Default is "Logged Abundance of Pseudomonadales". Other suggested options are: "Logged Abundance of Enterococcaceae", "Logged Abundance of Blautia", "Logged Abundance of unclassified Ruminococcaceae", "Logged Abundance of Desulfovibrionaceae", "Logged Abundance of Enterobacter", "Logged Abundance of Klebsiella", "Logged Abundance of Salmonella", "Logged Abundance of Pseudomonadales"
measureOfInterest	Name of growth measure that is the dependent variable of interest. Default is "inf_weight_kg_12m". Other options are strictly: "diffGrowth_zwei","diffGrowth_zbmi","diffGrowth_zwfl", "zwei_12m","zbmi_12m","zwfl_12m","inf_length_cm_12m", "skinf_midthigh_mm_12m","skinf_tricep_mm_12m","skinf_supra_mm_12m","skinf_subscap_mm_12m"
measureOfInterestTitle	Name of y label that matches the dependent variable of interest. Default is "12-Month Weight (kg)". Other suggested options are: "Difference in weight-for-age z-score","Difference in BMI-for-age z-score","Difference in weight-for-length z-score"", "Weight-for-age z-score at 12m","BMI z-score at 12m","Weight-for-length z-score at 12m","Length (cm) at 12m", "Midthigh skinfold (mm) at 12m","Tricep skinfold (mm) at 12m","Suprailaic skinfold (mm) at 12m","Subscapular skinfold (mm) at 12m"

Author(s)

Roshonda Barner Jones

Examples

plot_taxa_growthMeasures_association()

plot_taxa_growthMeasures_association(taxaOfInterest = "k__Bacteria| p__Proteobacteria| c__Gammaproteobacteria| o__Pseudomonadales",taxaOfInterestTitle = "Logged Abundance of Pseudomonadales", measureOfInterest = "inf_weight_kg_12m", measureOfInterestTitle = "12-Month Weight (kg)")

rbarner/rapidInfantGrowthMB documentation built on Sept. 30, 2020, 12:05 a.m.