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CulturePolot.R
CulturePolot.R
 
 
DirichletMultinomial.R
DirichletMultinomial.R
 
 
NEC_CAPanalysis.R
NEC_CAPanalysis.R
 
 
NEC_EnterotypeDistribution.R
NEC_EnterotypeDistribution.R
 
 
NEC_Fenton_ML.R
NEC_Fenton_ML.R
 
 
NEC_Fig1.R
NEC_Fig1.R
 
 
NEC_Fig3_metadata_associations.R
NEC_Fig3_metadata_associations.R
 
 
NEC_Figure4.R
NEC_Figure4.R
 
 
NEC_GLMM.R
NEC_GLMM.R
 
 
NEC_GLMM_Humann.R
NEC_GLMM_Humann.R
 
 
NEC_GLMM_RNA_humann.R
NEC_GLMM_RNA_humann.R
 
 
NEC_GLMM_RNA_overrepresentation.R
NEC_GLMM_RNA_overrepresentation.R
 
 
NEC_GLMM_RNA_tax.R
NEC_GLMM_RNA_tax.R
 
 
NEC_GLMM_controls_richness.R
NEC_GLMM_controls_richness.R
 
 
NEC_Humann_CircosPlot.R
NEC_Humann_CircosPlot.R
 
 
NEC_Maaslin2.R
NEC_Maaslin2.R
 
 
NEC_Maaslin2_Humann.R
NEC_Maaslin2_Humann.R
 
 
NEC_Maaslin2_Humann_RNA.R
NEC_Maaslin2_Humann_RNA.R
 
 
NEC_Maaslin2_Humann_lateEarly.R
NEC_Maaslin2_Humann_lateEarly.R
 
 
NEC_Maaslin2_RNA_humann.R
NEC_Maaslin2_RNA_humann.R
 
 
NEC_Maaslin2_RNA_tax.R
NEC_Maaslin2_RNA_tax.R
 
 
NEC_Maaslin2_control_DNA taxa.R
NEC_Maaslin2_control_DNA taxa.R
 
 
NEC_Maaslin2_control_DNA_functions.R
NEC_Maaslin2_control_DNA_functions.R
 
 
NEC_RNA_DNA_overrepresntation.R
NEC_RNA_DNA_overrepresntation.R
 
 
NEC_SummaryFig.R
NEC_SummaryFig.R
 
 
NEC_analysis.R
NEC_analysis.R
 
 
NEC_control_DNA_functions.R
NEC_control_DNA_functions.R
 
 
NEC_control_baseline_functions.R
NEC_control_baseline_functions.R
 
 
NEC_control_baseline_plotting.R
NEC_control_baseline_plotting.R
 
 
NEC_cytokine_plotting.R
NEC_cytokine_plotting.R
 
 
NEC_iRep_GLMM.R
NEC_iRep_GLMM.R
 
 
NEC_metadata_plot.R
NEC_metadata_plot.R
 
 
NEC_permutation_shift_metadata.R
NEC_permutation_shift_metadata.R
 
 
NEC_repeat_PERMANOVA.R
NEC_repeat_PERMANOVA.R
 
 
NEC_repeat_PERMANOVA_RNA_humann.R
NEC_repeat_PERMANOVA_RNA_humann.R
 
 
NEC_repeat_PERMANOVA_RNA_taxonomy.R
NEC_repeat_PERMANOVA_RNA_taxonomy.R
 
 
NEC_repeat_PERMANOVA_functions_controls.R
NEC_repeat_PERMANOVA_functions_controls.R
 
 
NEC_repeat_PERMANOVA_humann.R
NEC_repeat_PERMANOVA_humann.R
 
 
NEC_repeat_PERMANOVA_tax_controls.R
NEC_repeat_PERMANOVA_tax_controls.R
 
 
NEC_shortbred_shifts.R
NEC_shortbred_shifts.R
 
 
NEC_strainSharing_validation.R
NEC_strainSharing_validation.R
 
 
PERMANOVA_repeat_measures_meta.R
PERMANOVA_repeat_measures_meta.R
 
 
README.md
README.md
 
 
repeat_PRMANOVA_blocked_twice.R
repeat_PRMANOVA_blocked_twice.R
 
 
repeated_measures_PERMANOVA.R
repeated_measures_PERMANOVA.R
 
 
repeated_measures_anova_shift.R
repeated_measures_anova_shift.R
 
 

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NICUExposome

Scripts for NICU Exposome manuscript

Scripts for all analysis related to NICU Exposome manuscript. More analyses are present here than what are in the final manuscript.

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Scripts for NICU Exposome manuscript

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