Code to accompany paper "Monitoring cerebral oxygenation of preterm infants using a neonatal specific sensor"
Matlab and R code used to in:
Kenosi M, O’ Toole JM, Hawkes GA, Hutch W, Low E, Wall M, Boylan GB, Ryan CA, Dempsey EM, Monitoring cerebral oxygenation of preterm infants using a neonatal specific sensor, Journal of Perinatology, 2018, 38(3):264. 10.1038/s41372-017-0007-5
Code only. No data.
Please cite the above reference if using this code to generate new results.
The mixed-effects model is developed in R (version 3.3.1, The R Foundation of Statistical Computing) using the lme4 package (version 1.1-10). Script gen.MixedEffectsModel.R details model selection and estimation of fixed coefficients.
We define hypoxia as the total area <55/60% rcSO2 and hyperoxia as the total area >85/90% rcSO2, using the lower limits (i.e. 55% and 85%) for the extremely preterm infants and the upper limits (i.e. 60% and 90%) for the very preterm infants. This is generated in Matlab (version R2013b, The Mathworks). See file for outcome_hypoxia_hyperoxia.m for more details. Run in Matlab as
%% generate placeholder data (colour Gaussian noise for rcSO2) for 120 babies:
all_data=gen_random_NIRS_data(120);
%% estimate area above/below thresholds and compare between the 3 outcome groups:
outcome_hypoxia_hyperoxia(all_data);Above function assumes that the array-structure all_data is of the form:
| field name | explanation |
|---|---|
| baby_ID | string for baby identifier |
| DOB_time | time and date of birth (e.g. '14-Sep-2015 01:16:00') |
| GA | gestational age (in days) |
| outcome | either 1 = normal; 2 = mild; 3 = moderate/severe |
| nirs_time | time (vector) for rcSO2 (in seconds) |
| nirs_data | rcSO2 (vector) |
Copyright (c) 2017, John M. O' Toole, University College Cork
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John M. O' Toole
Neonatal Brain Research Group,
Irish Centre for Fetal and Neonatal Translational Research (INFANT),
Department of Paediatrics and Child Health,
Room 2.19 Paediatrics Bld, Cork University Hospital,
University College Cork,
Ireland
- email: j.otoole AT ieee.org