Abstract: This disclosure describes methods, non-transitory computer-readable media, and systems that can (i) identify reads that align with at least some portion of alternative contiguous sequences representing structural variant haplotypes within a structural variant reference genome and (ii) generate a structural-variant-alignment tag within an alignment file for such read alignments to guide identifying candidate structural-variant locations. In addition to employing structural-variant-alignment tags, the disclosed systems identify read fragments that align or overlap with portions of alternate contiguous sequences representing an insertion (or other structural variant) and further masks such insertion-overlapping read fragments as part of an alignment file.

Abstract: Read alignment is a time-consuming step in genome sequencing analysis. The most widely used software for read alignment, BWA-MEM and BWA-MEM2 are based on the seed-and-extend paradigm for read alignment. The seeding step of read alignment is a major bottleneck contributing ˜38% of the overall execution time in BWA-MEM2 when aligning whole human genome. This is because BWA-MEM2 uses a compressed index structure called the FMD-Index, which results in high bandwidth requirements, primarily due to its character-by-character processing of reads. To address these challenges, a novel seeding data structure is presented along with a custom accelerator architecture for seeding.

Abstract: A monitoring system can include a dashboard including a graphical user interface display space. The monitoring system can also include a digital twin validation (DTV) system. The DTV system can be configured to perform operations including rendering, in the graphical user interface display space, a visual representation of an output value of a digital model of an oil and gas industrial machine, and an interactive graphical object characterizing an input value of the digital model. The operations can also include receiving data characterizing user interaction with the interactive graphical object. The data characterizes the user interaction indicative of the input value of the digital model. The operations can also include updating the digital model to generate an updated output value representative of an operational characteristic of the oil and gas industrial machine.

Abstract: A monitoring system can include a dashboard including a graphical user interface display space. The monitoring system can also include a digital twin validation (DTV) system. The DTV system can be configured to perform operations including rendering, in the graphical user interface display space, a visual representation of an output value of a digital model of an oil and gas industrial machine, and an interactive graphical object characterizing an input value of the digital model. The operations can also include receiving data characterizing user interaction with the interactive graphical object. The data characterizes the user interaction indicative of the input value of the digital model. The operations can also include updating the digital model to generate an updated output value representative of an operational characteristic of the oil and gas industrial machine.