scholarly journals A Comparative Study of Machine Learning Methods for Persistence Diagrams

2021 ◽  
Vol 4 ◽  
Author(s):  
Danielle Barnes ◽  
Luis Polanco ◽  
Jose A. Perea
Keyword(s):  
Machine Learning ◽  
Comparative Study ◽  
Shape Matching ◽  
Data Sets ◽  
Learning Methods ◽  
Data Set ◽  
Multi Scale ◽  
Machine Learning Methods ◽  
Real World Applications ◽  
Persistence Diagrams

Many and varied methods currently exist for featurization, which is the process of mapping persistence diagrams to Euclidean space, with the goal of maximally preserving structure. However, and to our knowledge, there are presently no methodical comparisons of existing approaches, nor a standardized collection of test data sets. This paper provides a comparative study of several such methods. In particular, we review, evaluate, and compare the stable multi-scale kernel, persistence landscapes, persistence images, the ring of algebraic functions, template functions, and adaptive template systems. Using these approaches for feature extraction, we apply and compare popular machine learning methods on five data sets: MNIST, Shape retrieval of non-rigid 3D Human Models (SHREC14), extracts from the Protein Classification Benchmark Collection (Protein), MPEG7 shape matching, and HAM10000 skin lesion data set. These data sets are commonly used in the above methods for featurization, and we use them to evaluate predictive utility in real-world applications.

Comprehensive assessment of machine learning-based methods for predicting antimicrobial peptides

2021 ◽  
Author(s):  
Jing Xu ◽  
Fuyi Li ◽  
André Leier ◽  
Dongxu Xiang ◽  
Hsin-Hui Shen ◽  
...  
Keyword(s):  
Machine Learning ◽  
Antimicrobial Peptides ◽  
Computational Methods ◽  
Cross Validation ◽  
Predictive Performance ◽  
Support Vector ◽  
Data Sets ◽  
Learning Methods ◽  
Data Set ◽  
Machine Learning Methods

Abstract Antimicrobial peptides (AMPs) are a unique and diverse group of molecules that play a crucial role in a myriad of biological processes and cellular functions. AMP-related studies have become increasingly popular in recent years due to antimicrobial resistance, which is becoming an emerging global concern. Systematic experimental identification of AMPs faces many difficulties due to the limitations of current methods. Given its significance, more than 30 computational methods have been developed for accurate prediction of AMPs. These approaches show high diversity in their data set size, data quality, core algorithms, feature extraction, feature selection techniques and evaluation strategies. Here, we provide a comprehensive survey on a variety of current approaches for AMP identification and point at the differences between these methods. In addition, we evaluate the predictive performance of the surveyed tools based on an independent test data set containing 1536 AMPs and 1536 non-AMPs. Furthermore, we construct six validation data sets based on six different common AMP databases and compare different computational methods based on these data sets. The results indicate that amPEPpy achieves the best predictive performance and outperforms the other compared methods. As the predictive performances are affected by the different data sets used by different methods, we additionally perform the 5-fold cross-validation test to benchmark different traditional machine learning methods on the same data set. These cross-validation results indicate that random forest, support vector machine and eXtreme Gradient Boosting achieve comparatively better performances than other machine learning methods and are often the algorithms of choice of multiple AMP prediction tools.

scholarly journals Automatic Misinformation Detection About COVID-19 in Brazilian Portuguese WhatsApp Messages

2021 ◽  
Author(s):  
Antônio Diogo Forte Martins ◽  
José Maria Monteiro ◽  
Javam Machado
Keyword(s):  
Machine Learning ◽  
Social Networks ◽  
Brazilian Portuguese ◽  
Primary Sources ◽  
Learning Methods ◽  
Data Set ◽  
Machine Learning Methods

During the coronavirus pandemic, the problem of misinformation arose once again, quite intensely, through social networks. In Brazil, one of the primary sources of misinformation is the messaging application WhatsApp. However, due to WhatsApp's private messaging nature, there still few methods of misinformation detection developed specifically for this platform. In this context, the automatic misinformation detection (MID) about COVID-19 in Brazilian Portuguese WhatsApp messages becomes a crucial challenge. In this work, we present the COVID-19.BR, a data set of WhatsApp messages about coronavirus in Brazilian Portuguese, collected from Brazilian public groups and manually labeled. Then, we are investigating different machine learning methods in order to build an efficient MID for WhatsApp messages. So far, our best result achieved an F1 score of 0.774 due to the predominance of short texts. However, when texts with less than 50 words are filtered, the F1 score rises to 0.85.

scholarly journals Comparison of machine learning methods for crack localization

2019 ◽  
Vol 23 (1) ◽  
pp. 125-142
Author(s):  
Helle Hein ◽  
Ljubov Jaanuska
Keyword(s):  
Machine Learning ◽  
Random Forests ◽  
Crack Depth ◽  
Haar Wavelet ◽  
Extensive Investigation ◽  
Learning Methods ◽  
Data Set ◽  
Crack Location ◽  
Machine Learning Methods ◽  
Discrete Transform

In this paper, the Haar wavelet discrete transform, the artificial neural networks (ANNs), and the random forests (RFs) are applied to predict the location and severity of a crack in an Euler–Bernoulli cantilever subjected to the transverse free vibration. An extensive investigation into two data collection sets and machine learning methods showed that the depth of a crack is more difficult to predict than its location. The data set of eight natural frequency parameters produces more accurate predictions on the crack depth; meanwhile, the data set of eight Haar wavelet coefficients produces more precise predictions on the crack location. Furthermore, the analysis of the results showed that the ensemble of 50 ANN trained by Bayesian regularization and Levenberg–Marquardt algorithms slightly outperforms RF.

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