Floods are among the most common and devastating natural hazards, imposing immense costs on our society and economy due to their disastrous consequences. Recent progress in weather prediction and spaceborne flood mapping demonstrated the feasibility of anticipating extreme events and reliably detecting their catastrophic effects afterwards. However, these efforts are rarely linked to one another and there is a critical lack of datasets and benchmarks to enable the direct forecasting of flood extent. To resolve this issue, we curate a novel dataset enabling a timely prediction of flood extent. Furthermore, we provide a representative evaluation of state-of-the-art methods, structured into two benchmark tracks for forecasting flood inundation maps i) in general and ii) focused on coastal regions. Altogether, our dataset and benchmark provide a comprehensive platform for evaluating flood forecasts, enabling future solutions for this critical challenge. Data, code & models are shared at https://github.com/Multihuntr/GFF under a CC0 license.

It is of considerable interest to detect somatic mutations in paired tumor and normal sequencing data. A number of callers that are based on statistical or machine learning approaches have been developed to detect somatic small variants. However, they take into consideration only limited information about the reference and potential variant allele in both tumor and normal samples at a candidate somatic site. Also, they differ in how biological and technological noises are addressed. Hence, they are expected to produce divergent outputs. To overcome the drawbacks of existing somatic callers, we develop a deep learning-based tool called DeepSSV, which employs a convolutional neural network (CNN) model to learn increasingly abstract feature representations from the raw data in higher feature layers. DeepSSV creates a spatially oriented representation of read alignments around the candidate somatic sites adapted for the convolutional architecture, which enables it to expand to effectively gather scattered evidence. Moreover, DeepSSV incorporates the mapping information of both reference allele-supporting and variant allele-supporting reads in the tumor and normal samples at a genomic site that are readily available in the pileup format file. Together, the CNN model can process the whole alignment information. Such representational richness allows the model to capture the dependencies in the sequence and identify context-based sequencing artifacts. We fitted the model on ground truth somatic mutations and did benchmarking experiments on simulated and real tumors. The benchmarking results demonstrate that DeepSSV outperforms its state-of-the-art competitors in overall F1 score.