End-to-End Machine Learning Applications Framework for Earth Science
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Freitag, Brian↗
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Active Learning for Directed Exploration of Complex Systems
Physics-based simulation codes are widely used in science and engineering to model complex systems that would be infeasible to study otherwise. Such codes provide the highest-fidelity representation of system behavior, but are often so slow to run that insight into the system is limited. For example, conducting an exhaustive sweep over a d-dimensional input parameter space with k-steps along each dimension requires k(sup d) simulation trials (translating into k(sup d) CPU-days for one of our current simulations). An alternative is directed exploration in which the next simulation trials are cleverly chosen at each step. Given the results of previous trials, supervised learning techniques (SVM, KDE, GP) are applied to build up simplified predictive models of system behavior. These models are then used within an active learning framework to identify the most valuable trials to run next. Several active learning strategies are examined including a recently-proposed information-theoretic approach. Performance is evaluated on a set of thirteen synthetic oracles, which serve as surrogates for the more expensive simulations and enable the experiments to be replicated by other researchers.
oracles↗
Open-source Techniques for Automated Landslide Inventory Generation for Rapid Response
Manual mapping is the most used method for generating landslide inventories. For rapid response scenario this method becomes tedious and time consuming. The Landslide team at NASA Goddard Space Flight Center has been developing open-source landslide mapping systems for rapid generation of landslide inventories. We have developed a Python-based landslide mapping framework known as the Semi-Automatic Landslide Detection (SALaD) system that uses Object-based Image Analysis and machine learning. For production of event-based inventories, SALaD was modified to include a change detection module (SALaD-CD). Utilizing high-resolution imagery form from Planet and Maxar, we have generated multiple rapid response landslide inventories that have been used by emergency responders on the ground, the NASA Disasters program, and academia. Currently, we are exploiting deep learning frameworks for landslide mapping. We are interested to learn about efficient way to harmonize multi-sensor data for creating a long-term record of landslides, training strategies and ongoing deep learning-based efforts for natural hazard characterization within NASA and UMD.
Pukar Amatya↗
Towards Physics Guided Optical Flow for Tracking Atmospheric Motion
Observations of atmospheric 3D winds are critical for improving short-range and long-range forecasting. Such advancement in forecasting directly applies to research in a number of areas including convective processes, wildfire plumes and tornado prediction. Atmospheric Motion Vectors (AMVs) provide a passively sensed approach to quantifying horizontal motion and cloud heights, which are typically sourced from geostationary sensors due to the availability of high frequency observations. Recent work has shown that estimating AMVs by tracking individual pixels with dense optical flow is a promising new direction. In this work, we compare state-of-the-art convolutional neural networks for optical flow in a physics-guided deep learning framework for predicting AMVs. The approach is semi-supervised and uses physically informed wind vectors from high-resolution numerical simulations for supervised learning followed by fine-tuning though warping and reconstruction of full-disk geostationary images (GOES-16). In the vertical direction, we use labels from the CALIPSO low-earth orbit satellite to predict cloud height from 16-band geostationary images with a neural network. We present results for both tasks on held-out time periods and secondary datasets.
Geostationary↗
Towards Physics Guided Optical Flow for Tracking Atmospheric Motion
Atmospheric 3D winds in the horizontal and vertical directions are critical for improving short-range and long-range forecasting. Such advancement in forecasting directly applies to research in a number of areas including convective processes, wildfire plumes and tornado prediction. Atmospheric Motion Vectors (AMVs) provide a passively sensed approach to quantifying horizontal motion and cloud heights, which are typically sourced from geostationary sensors due to the availability of high frequency observations. Recent work has shown that estimating AMVs by tracking individual pixels with dense optical flow is a promising new direction. In this work, we use a state-of-the-art convolutional neural network for optical flow (FlowNetS) in a physics-guided deep learning framework for predicting AMVs in the horizontal direction. The approach is semi-supervised and uses physically informed wind vectors from high-resolution numerical simulations (DYAMOND) for supervised learning followed by fine-tuning though warping and reconstruction of full-disk geostationary images (GOES-16). In the vertical direction, we use labels from the CALIPSO low-earth orbit satellite to predict cloud height from 16-band geostationary images with a neural network. We present results for both tasks on held-out time periods and secondary datasets.
geostationary↗
Predicting the Functional State of Protein Kinases Using Interpretable Graph Neural Networks
Kinases are a family of proteins that function as molecular switches, regulating several essential cellular activities such as cell proliferation. Dysfunctional kinases are implicated in several types of cancers and hence they are actively pursued as drug targets. Given the vast number of complex kinase structures that are available in the protein data bank (PDB), there is a necessity to develop methodologies that can identify structurally important moieties of the kinases in an automated fashion, for such techniques can be instrumental in identifying novel drug targets. In this work, we develop a graph neural network (GNN) based deep learning framework for classifying the functionally active and inactive states of a large set of eukaryotic protein kinases, making use of their 3D structure from the PDB. We show that GNN based machine learning models can classify protein states with an accuracy greater than 97%. We further use the GNN models to automatically identify regions of the kinases that are important for its function. For this purpose, Gradient-weighted Class Activation Mapping (Grad-CAM) was implemented on the protein graphs. Remarkably, Grad-CAM consistently identifies the highly conserved DFG motif as the most important part of the protein across the entire kinome, without any prior input. Other regions of the hydrophobic core such as the HRD motif were also identified by the interpretable GNN framework, consistent with the literature. We discuss the significance of each of these regions in detail.
Ashwin Ravichandran↗
Integrating Machine Learning into a Crowdsourced Model for Earthquake-Induced Damage Assessment
On January 12th, 2010, a catastrophic 7.0M earthquake devastated the country of Haiti. In the aftermath of an earthquake, it is important to rapidly assess damaged areas in order to mobilize the appropriate resources. The Haiti damage assessment effort introduced a promising model that uses crowdsourcing to map damaged areas in freely available remotely-sensed data. This paper proposes the application of machine learning methods to improve this model. Specifically, we apply work on learning from multiple, imperfect experts to the assessment of volunteer reliability, and propose the use of image segmentation to automate the detection of damaged areas. We wrap both tasks in an active learning framework in order to shift volunteer effort from mapping a full catalog of images to the generation of high-quality training data. We hypothesize that the integration of machine learning into this model improves its reliability, maintains the speed of damage assessment, and allows the model to scale to higher data volumes.
crowdsourcing↗
Automatic cataloguing and characterization of Earth science data using SE-trees
In the future, NASA's Earth Observing System (EOS) platforms will produce enormous amounts of remote sensing image data that will be stored in the EOS Data Information System. For the past several years, the Intelligent Data Management group at Goddard's Information Science and Technology Office has been researching techniques for automatically cataloguing and characterizing image data (ADCC) from EOS into a distributed database. At the core of the approach, scientists will be able to retrieve data based upon the contents of the imagery. The ability to automatically classify imagery is key to the success of contents-based search. We report results from experiments applying a novel machine learning framework, based on Set-Enumeration (SE) trees, to the ADCC domain. We experiment with two images: one taken from the Blackhills region in South Dakota; and the other from the Washington DC area. In a classical machine learning experimentation approach, an image's pixels are randomly partitioned into training (i.e. including ground truth or survey data) and testing sets. The prediction model is built using the pixels in the training set, and its performance is estimated using the testing set. With the first Blackhills image, we perform various experiments achieving an accuracy level of 83.2 percent, compared to 72.7 percent using a Back Propagation Neural Network (BPNN) and 65.3 percent using a Gaussain Maximum Likelihood Classifier (GMLC). However, with the Washington DC image, we were only able to achieve 71.4 percent, compared with 67.7 percent reported for the BPNN model and 62.3 percent for the GMLC.
Rymon, Ron↗
Learning time series for intelligent monitoring
We address the problem of classifying time series according to their morphological features in the time domain. In a supervised machine-learning framework, we induce a classification procedure from a set of preclassified examples. For each class, we infer a model that captures its morphological features using Bayesian model induction and the minimum message length approach to assign priors. In the performance task, we classify a time series in one of the learned classes when there is enough evidence to support that decision. Time series with sufficiently novel features, belonging to classes not present in the training set, are recognized as such. We report results from experiments in a monitoring domain of interest to NASA.
Manganaris, Stefanos↗
Mars Terrain Segmentation with Less Labels
Planetary rover systems need to perform terrain segmentation to identify drivable areas as well as identify specific types of soil for sample collection. The latest Martian terrain segmentation methods rely on supervised learning which is very data hungry and difficult to train where only a small number of labeled samples are available. Moreover, the semantic classes are defined differently for different applications (e.g., rover traversal vs. geological) and as a result the network has to be trained from scratch each time, which is an inefficient use of resources. This research proposes a semi-supervised learning framework for Mars terrain segmentation where a deep segmentation network trained in an unsupervised manner on unlabeled images is transferred to the task of terrain segmentation trained on few labeled images. The network incorporates a backbone module which is trained using a contrastive loss function and an output atrous convolution module which is trained using a pixel-wise cross-entropy loss function. Evaluation results using the metric of segmentation accuracy show that the proposed method with contrastive pre-training outperforms plain supervised learning by 2%-10%. Moreover, the proposed model is able to achieve a segmentation accuracy of 91.1% using only 161 training images (1% of the original dataset) compared to 81.9% with plain supervised learning.
Wilson, Brian D↗
DroughtCast: A Machine Learning Forecast of the United States Drought Monitor
Drought is one of the most ecologically and economically devastating natural phenomena affecting the United States, causing the U.S. economy billions of dollars in damage, and driving widespread degradation of ecosystem health. Many drought indices are implemented to monitor the current extent and status of drought so stakeholders such as farmers and local governments can appropriately respond. Methods toforecast drought conditions weeks to months in advance are less common but would provide a more effective early warning system to enhance drought response, mitigation, and adaptation planning. To resolve this issue, we introduce DroughtCast, a machine learning framework for forecasting the United States Drought Monitor (USDM). DroughtCast operates on the knowledge that recent anomalies in hydrology and meteorology drive future changes in drought conditions. We use simulated meteorology and satellite observed soil moisture as inputs into a recurrent neural network to accurately forecast the USDM between 1 and 12 weeks into the future. Our analysis shows that precipitation, soil moisture, and temperature are the most important input variables when forecasting future drought conditions. Additionally, a case study of the 2017 Northern Plains Flash Drought shows that DroughtCast was able to forecast a very extreme drought event up to 12 weeks before its onset. Given the favorable forecasting skill of the model, DroughtCast may provide a promising tool for land managers and local governments in preparing for and mitigating the effects of drought.
Machine Learning↗
Data-driven landslide nowcasting at the global scale
Landslides affect nearly every country in the world each year. To better understand this global hazard, the Landslide Hazard Assessment for Situational Awareness (LHASA) model was developed previously. LHASA version 1 combines satellite precipitation estimates with a global landslide susceptibility map to produce a gridded map of potentially hazardous areas from 60° North-South every 3 h. LHASA version 1 categorizes the world’s land surface into three ratings: high, moderate, and low hazard with a single decision tree that first determines if the last seven days of rainfall were intense, then evaluates landslide susceptibility. LHASA version 2 has been developed with a data-driven approach. The global susceptibility map was replaced with a collection of explanatory variables, and two new dynamically varying quantities were added: snow and soil moisture. Along with antecedent rainfall, these variables modulated the response to current daily rainfall. In addition, the Global Landslide Catalog (GLC) was supplemented with several inventories of rainfall-triggered landslide events. These factors were incorporated into the machine-learning framework XGBoost, which was trained to predict the presence or absence of landslides over the period 2015–2018, with the years 2019–2020 reserved for model evaluation. As a result of these improvements, the new global landslide nowcast was twice as likely to predict the occurrence of historical landslides as LHASA version 1, given the same global false positive rate. Furthermore, the shift to probabilistic outputs allows users to directly manage the trade-off between false negatives and false positives, which should make the nowcast useful for a greater variety of geographic settings and applications. In a retrospective analysis, the trained model ran over a global domain for 5 years, and results for LHASA version 1 and version 2 were compared. Due to the importance of rainfall and faults in LHASA version 2, nowcasts would be issued more frequently in some tropical countries, such as Colombia and Papua New Guinea; at the same time, the new version placed less emphasis on arid regions and areas far from the Pacific Rim. LHASA version 2 provides a nearly real-time view of global landslide hazard for a variety of stakeholders.
XGBoos↗
Reinforcement learning in scheduling
The goal of this research is to apply reinforcement learning methods to real-world problems like scheduling. In this preliminary paper, we show that learning to solve scheduling problems such as the Space Shuttle Payload Processing and the Automatic Guided Vehicle (AGV) scheduling can be usefully studied in the reinforcement learning framework. We discuss some of the special challenges posed by the scheduling domain to these methods and propose some possible solutions we plan to implement.
Dietterich, Tom G.↗
Ultrafast Melting at Metal-Semiconductor Interfaces: A Molecular Dynamics Study
Quantifying the thermodynamics of interfacial melting is important for several applications such as laser machining and designing radiation hardened electronic devices. Due to the short time and length scales that are involved in the process, molecular simulations provide an ideal path for understating the interfacial melting phenomena. In this work we investigate tungsten (W) – silicon carbide (SiC) interfaces which are relevant in modern high-power electronic devices. Classical molecular dynamics simulations along with the two-temperature model (TTM) were used to study the radiation induced melting of the interface while a neural network-based machine learning framework was used to track the transient re-crystallization process. The damage endured by the semiconductor at the interface following the radiation event is discussed in detail while the re-crystallization of the metal is described in terms of the classical nucleation theory.
Ashwin Ravichandran↗
Ellicott City Disasters II: Enhancing a Statistical Flood Risk Model to Continue Improving Early Warning Systems and Public Safety in Ellicott City, Maryland
As flooding events in the United States grow in frequency and intensity, the use of technological advancements and applied science are increasingly necessary for effective flood monitoring and warning systems. The NASA DEVELOP Ellicott City Disasters II project investigated the use of machine learning for applications in flood risk detection to support the improvement of early warning systems. To strengthen the efforts of the Howard County Office of Emergency Management (OEM) in building a more robust flood monitoring system, the project improved the original statistical flood risk model, FLuME (Flood Learning Model Environment), programmed by the first DEVELOP term. The enhancements incorporated an additional six years of precipitation and soil moisture data from the North American Land Data Assimilation System (NLDAS), modeled using Aqua Advanced Microwave Scanning Radiometer for EOS and Tropical Rainfall Measuring Mission (TRMM) Microwave Imager. These Earth observations were supplemented by stream gauge data from the OEM and the US Geological Survey. The resultant flood risk model FLASH (Flood Learning Environment and Severity Assessment Hub) was trained to evaluate input variables and predict stage height in Ellicott City in real time. The addition of an advanced deep learning framework known as long short-term memory improved the model’s ability to capture relationships between variables. To assess the effectiveness of the new model, FLASH produced a model efficiency metric of 0.99, a significant improvement over the 0.85 value produced by the previous model. The project assisted the OEM in pursuing the integration of open data and NASA Earth observations into a threat matrix capable of informing near real-time decision making.
Disasters↗
Ellicott City Disasters II: Enhancing a Statistical Flood Risk Model to Continue Improving Early Warning Systems and Public Safety in Ellicott City, Maryland
As flooding events in the United States grow in frequency and intensity, the use of technological advancements and applied science are increasingly necessary for effective flood monitoring and warning systems. The NASA DEVELOP Ellicott City Disasters II project investigated the use of machine learning for applications in flood risk detection to support the improvement of early warning systems. To strengthen the efforts of the Howard County Office of Emergency Management (OEM) in building a more robust flood monitoring system, the project improved the original statistical flood risk model, FLuME (Flood Learning Model Environment), programmed by the first DEVELOP term The enhancements incorporated an additional six years of precipitation and soil moisture data from the North American Land Data Assimilation System (NLDAS), modeled using Aqua Advanced Microwave Scanning Radiometer for EOS and Tropical Rainfall Measuring Mission TRMM Microwave Imager. These Earth observations were supplemented by stream gauge data from the OEM and the US Geological Survey. The resultant flood risk model FLASH (Flood Learning Environment and Severity Assessment Hub) was trained to evaluate input variables and predict stage height in Ellicott City in real time. The addition of an advanced deep learning framework known as long short-term memory improved the model’s ability to capture relationships between variables. To assess the effectiveness of the new model, FLASH produced a model efficiency metric of 0.99, a significant improvement over the 0.85 value produced by the previous model. The project assisted the OEM in pursuing the integration of open data and NASA Earth observations into a threat matrix capable of informing near real-time decision making.
Disasters↗
Object and Gas Source Detection with Robotic Platforms in Perceptually-Degraded Environments
In exploration-oriented robotic missions for disaster relief in unknown subterranean environments, it is of prime importance for a human supervisor to rapidly gain situational awareness of salient objects within the environment. In this paper we present an automated object detection pipeline that is adaptable to heterogeneous robots with arbitrary sensor configurations. It has been deployed in time-critical scenarios with multiple collaborative robots in a variety of demanding underground environments. For visually observable objects, detections are made in both the visible and thermal spectra using a state-of-the-art machine learning framework for object detection and classification. Our pipeline can be rapidly adapted to a specific task by using a small, structured dataset to fine-tune a pre-trained convolutional neural network (CNN). Relative localization is separated from the CNN for speed of operation. A robust architecture for localization is used with outlier rejection and a hierarchy of fall-back distance measurement methods. Point-source objects such as gas and WiFi hotspots can also be detected, by tracking signal strength over time and presenting an intuitive visualization on a map. Observations of each object types are presented to the operator in ranked confidence order for final evaluation.
Agha-mohammadi, Ali-akbar↗
TLife-LSTM: Forecasting Future COVID-19 Progression with Topological Signatures of Atmospheric Conditions
Understanding the impact of atmospheric conditions on SARS-CoV2 is critical to model COVID-19 dynamics and sheds a light on the future spread around the world. Furthermore, geographic distri- butions of expected clinical severity of COVID-19 may be closely linked to prior history of respiratory diseases and changes in humidity, tem- perature, and air quality. In this context, we postulate that by tracking topological features of atmospheric conditions over time, we can provide a quanti?able structural distribution of atmospheric changes that are likely to be related to COVID-19 dynamics. As such, we apply the machinery of persistence homology on time series of graphs to extract topological signatures and to follow geographical changes in relative humidity and temperature. We develop an integrative machine learning framework named Topological Lifespan LSTM (TLife-LSTM) and test its predictive capabilities on forecasting the dynamics of SARS-CoV2 cases. We validate our framework using the number of con?rmed cases and hospitalization rates recorded in the states of Washington and California in the USA. Our results demonstrate the predictive potential of TLife-LSTM in forecasting the dynamics of COVID-19 and modeling its complex spatio-temporal spread dynamics.
Gel, Yulia R.↗