| Literature DB >> 28316893 |
Shih-Hsiung Liang1, Bruno Andreas Walther2, Bao-Sen Shieh3.
Abstract
BACKGROUND: Biological invasions have become a major threat to biodiversity, and identifying determinants underlying success at different stages of the invasion process is essential for both prevention management and testing ecological theories. To investigate variables associated with different stages of the invasion process in a local region such as Taiwan, potential problems using traditional parametric analyses include too many variables of different data types (nominal, ordinal, and interval) and a relatively small data set with too many missing values.Entities:
Keywords: Alien birds; Biological invasion; Gradient boosting; Model comparison; Random forest
Year: 2017 PMID: 28316893 PMCID: PMC5354111 DOI: 10.7717/peerj.3092
Source DB: PubMed Journal: PeerJ ISSN: 2167-8359 Impact factor: 2.984
Figure 1The visual output of the introduction model based on the classification tree method for exotic birds of Taiwan generated from the dataset of 283 transported species, of which 95 species successfully escaped in the field (see Table S1 for associated information of each species and Table S2 for code descriptions of variables).
Figure 2The visual output of the establishment model based on the classification tree method for exotic birds of Taiwan generated from the dataset of 95 introduced species, of which 36 species successfully reproduced in the field (see Table S1 for associated information of each species and Table S2 for code descriptions of variables).
Comparison of five performance measures among five introduction models of exotic birds in Taiwan, separately for three variable treatments (see ‘Methods’ for details).
| Model | AUROC | Specificity | Precision | Recall | Accuracy | Total |
|---|---|---|---|---|---|---|
| DT_no bagging | 0.894 | 0.830 | 0.722 | 0.874 | 0.845 | 4.164 |
| DT_bagging 90% | 0.970 | 0.936 | 0.782 | 0.453 | 0.774 | 3.914 |
| DT_bagging 100% | 0.976 | 0.910 | 0.742 | 0.516 | 0.777 | 3.921 |
| Gradient boosting | 0.936 | 0.941 | 0.869 | 0.768 | 0.883 | 4.398 |
| HP Forest | 0.903 | 0.963 | 0.873 | 0.505 | 0.809 | 4.053 |
| DT_no bagging | 0.904 | 0.872 | 0.765 | 0.821 | 0.855 | 4.217 |
| DT_bagging 90% | 0.949 | 0.899 | 0.683 | 0.432 | 0.742 | 3.705 |
| DT_bagging 100% | 0.955 | 0.910 | 0.742 | 0.516 | 0.777 | 3.900 |
| Gradient Boosting | 0.924 | 0.915 | 0.816 | 0.747 | 0.859 | 4.261 |
| HP Forest | 0.894 | 0.963 | 0.848 | 0.411 | 0.777 | 3.893 |
| DT_no bagging | 0.910 | 0.888 | 0.781 | 0.789 | 0.855 | 4.224 |
| DT_bagging 90% | 0.946 | 0.910 | 0.691 | 0.400 | 0.739 | 3.685 |
| DT_bagging 100% | 0.953 | 0.888 | 0.700 | 0.516 | 0.763 | 3.820 |
| Gradient Boosting | 0.919 | 0.926 | 0.827 | 0.705 | 0.852 | 4.229 |
| HP Forest | 0.888 | 0.957 | 0.840 | 0.442 | 0.784 | 3.912 |
Comparison of five performance measures among five establishment models of exotic birds in Taiwan, separately for three variable treatments (see ‘Methods’ for details).
| Model | AUROC | Specificity | Precision | Recall | Accuracy | Total |
|---|---|---|---|---|---|---|
| DT_no bagging | 0.839 | 0.898 | 0.806 | 0.694 | 0.821 | 4.059 |
| DT_bagging 90% | 0.945 | 0.932 | 0.800 | 0.444 | 0.747 | 3.869 |
| DT_bagging 100% | 0.963 | 0.949 | 0.842 | 0.444 | 0.758 | 3.957 |
| Gradient Boosting | 0.985 | 1.000 | 1.000 | 0.861 | 0.947 | 4.793 |
| HP Forest | 0.901 | 0.983 | 0.875 | 0.194 | 0.684 | 3.638 |
| DT_no bagging | 0.839 | 0.898 | 0.806 | 0.694 | 0.821 | 4.059 |
| DT_bagging 90% | 0.942 | 0.932 | 0.800 | 0.444 | 0.747 | 3.866 |
| DT_bagging 100% | 0.963 | 0.949 | 0.842 | 0.444 | 0.758 | 3.957 |
| Gradient boosting | 0.976 | 0.983 | 0.969 | 0.861 | 0.937 | 4.726 |
| HP Forest | 0.914 | 1.000 | 1.000 | 0.167 | 0.684 | 3.765 |
| DT_no bagging | 0.839 | 0.898 | 0.806 | 0.694 | 0.821 | 4.059 |
| DT_bagging 90% | 0.936 | 0.932 | 0.800 | 0.444 | 0.747 | 3.860 |
| DT_bagging 100% | 0.940 | 0.949 | 0.842 | 0.444 | 0.758 | 3.934 |
| Gradient boosting | 0.971 | 1.000 | 1.000 | 0.778 | 0.916 | 4.665 |
| HP Forest | 0.912 | 1.000 | 1.000 | 0.139 | 0.674 | 3.725 |
Figure 3Relative importance of variables in the prediction models using the gradient boosting approach (grey bars for introduction models and black bars for establishment models).
For descriptions of codes for variables, see Table S2.