相关论文: External memory BWT and LCP computation for sequen…
Exactly computing the full output distribution of linear optical circuits remains a challenge, as existing methods are either time-efficient but memory-intensive or memory-efficient but slow. Moreover, any realistic simulation must account…
The super point, a host which communicates with lots of others, is a kind of special hosts gotten great focus. Mining super point at the edge of a network is the foundation of many network research fields. In this paper, we proposed the…
The (Non-Preemptive) Throughput Maximization problem is a natural and fundamental scheduling problem. We are given $n$ jobs, where each job $j$ is characterized by a processing time and a time window, contained in a global interval $[0,T)$,…
Indexing highly repetitive texts --- such as genomic databases, software repositories and versioned text collections --- has become an important problem since the turn of the millennium. A relevant compressibility measure for repetitive…
We consider the dynamic range minimum problem on the ultra-wide word RAM model of computation. This model extends the classic $w$-bit word RAM model with special ultrawords of length $w^2$ bits that support standard arithmetic and boolean…
The following report introduces ideas augmenting standard Long Short Term Memory (LSTM) architecture with multiple memory cells per hidden unit in order to improve its generalization capabilities. It considers both deterministic and…
A string matching -- and more generally, sequence matching -- algorithm is presented that has a linear worst-case computing time bound, a low worst-case bound on the number of comparisons (2n), and sublinear average-case behavior that is…
Binary Neural Networks (BNNs) are showing tremendous success on realistic image classification tasks. Notably, their accuracy is similar to the state-of-the-art accuracy obtained by full-precision models tailored to edge devices. In this…
LFR is a popular benchmark graph generator used to evaluate community detection algorithms. We present EM-LFR, the first external memory algorithm able to generate massive complex networks following the LFR benchmark. Its most expensive…
The growing memory demands of modern applications have driven the adoption of far memory technologies in data centers to provide cost-effective, high-capacity memory solutions. However, far memory presents new performance challenges because…
In this paper, we present a number of network-analysis algorithms in the external-memory model. We focus on methods for large naturally sparse graphs, that is, n-vertex graphs that have O(n) edges and are structured so that this sparsity…
Large language models (LLMs) have emerged as a cornerstone in real-world applications with lengthy streaming inputs (e.g., LLM-driven agents). However, existing LLMs, pre-trained on sequences with a restricted maximum length, cannot process…
An external memory data structure is presented for maintaining a dynamic set of $N$ two-dimensional points under the insertion and deletion of points, and supporting 3-sided range reporting queries and top-$k$ queries, where top-$k$ queries…
To obtain a better understanding of the trade-offs between various objectives, Bi-Objective Integer Programming (BOIP) algorithms calculate the set of all non-dominated vectors and present these as the solution to a BOIP problem.…
We follow up on the idea of Lars Arge to rephrase the Reduce and Apply procedures of Binary Decision Diagrams (BDDs) as iterative I/O-efficient algorithms. We identify multiple avenues to simplify and improve the performance of his proposed…
When approaching to problems in computer science, we often encounter situations where a subset of a finite set maximizing some utility function needs to be selected. Some of such utility functions are known to be approximately submodular.…
This paper addresses the challenges of mining latent patterns and modeling contextual dependencies in complex sequence data. A sequence pattern mining algorithm is proposed by integrating Bidirectional Long Short-Term Memory (BiLSTM) with a…
This paper proposes a thought experiment to search for efficient bounded algorithms of NPC problems by machine enumeration. The key contributions are: -- On Universal Turing Machines, a program's time complexity should be characterized as:…
Effective training of today's large language models (LLMs) depends on large batches and long sequences for throughput and accuracy. To handle variable-length sequences on hardware accelerators, it is common practice to introduce padding…
In recent years, the focus of bioinformatics research has moved from individual sequences to collections of sequences. Given the fundamental role of the Burrows-Wheeler Transform (BWT) in string processing, a number of dedicated tools have…