Related papers: Prefix-free parsing for merging big BWTs

Fast Fourier Transforms (FFT) are widely used to reduce memory and computational costs in deep learning. However, existing implementations, including standard FFT and real FFT (rFFT), cannot achieve true in-place computation. In particular,…

Teaching new information to pre-trained large language models (PLM) is a crucial but challenging task. Model adaptation techniques, such as fine-tuning and parameter-efficient training have been shown to store new facts at a slow rate;…

Improving the reasoning capabilities of large language models (LLMs) typically requires supervised fine-tuning with labeled data or computationally expensive sampling. We introduce Unsupervised Prefix Fine-Tuning (UPFT), which leverages the…

Recently, Cenzato et al.\ proposed a new text index, called the \emph{suffixient array}, which is a subset of the suffix array and supports locating a single pattern occurrence or finding its maximal exact matches (MEMs), assuming random…

Model merging is attracting attention as a novel method for creating a new model by combining the weights of different trained models. While previous studies reported that model merging works well for models trained on a single dataset with…

The suffix tree is arguably the most fundamental data structure on strings: introduced by Weiner (SWAT 1973) and McCreight (JACM 1976), it allows solving a myriad of computational problems on strings in linear time. Motivated by its large…

Large language models (LLMs) perform remarkably well on tabular datasets in zero- and few-shot settings, since they can extract meaning from natural language column headers that describe features and labels. Similarly, TabPFN, a recent…

Transformers have emerged as the cornerstone of state-of-the-art natural language processing models, showcasing exceptional performance across a wide range of AI applications. However, the memory demands posed by the self-attention…

W projection is a commonly-used approach to allow interferometric imaging to be accelerated by Fast Fourier Transforms (FFTs), but it can require a huge amount of storage for convolution kernels. The kernels are not separable, but we show…

In this paper we develop a theory describing how the extended Burrows-Wheeler Transform (eBWT) of a collection of DNA fragments tends to cluster together the copies of nucleotides sequenced from a genome G. Our theory accurately predicts…

Transformer-based models, exemplified by GPT-3, ChatGPT, and GPT-4, have recently garnered considerable attention in both academia and industry due to their promising performance in general language tasks. Nevertheless, these models…

Most neural machine translation systems are built upon subword units extracted by methods such as Byte-Pair Encoding (BPE) or wordpiece. However, the choice of number of merge operations is generally made by following existing recipes. In…

Although Federated Learning (FL) enables collaborative learning in Artificial Intelligence of Things (AIoT) design, it fails to work on low-memory AIoT devices due to its heavy memory usage. To address this problem, various federated…

The Burrows Wheeler transform has applications in data compression as well as full text indexing. Despite its important applications and various existing algorithmic approaches the construction of the transform for large data sets is still…

Highly-concurrent system models with vast state spaces like Chemical Reaction Networks (CRNs) that model biological and chemical systems pose a formidable challenge to cutting-edge formal analysis tools. Although many symbolic approaches…

Bloom filters are widely used data structures that compactly represent sets of elements. Querying a Bloom filter reveals if an element is not included in the underlying set or is included with a certain error rate. This membership testing…

Fine-tuning is the de facto way to leverage large pretrained language models to perform downstream tasks. However, it modifies all the language model parameters and therefore necessitates storing a full copy for each task. In this paper, we…

The Burrows-Wheeler transform (BWT) is a string transformation that enhances string indexing and compressibility. Cotumaccio and Prezza [SODA '21] extended this transformation to nondeterministic finite automata (NFAs) through…

To obtain high-quality sentence embeddings from pretrained language models (PLMs), they must either be augmented with additional pretraining objectives or finetuned on a large set of labeled text pairs. While the latter approach typically…

The Positional Burrows-Wheeler Transform (PBWT) is a fundamental data structure for the efficient representation and analysis of large-scale haplotype panels. For a panel of $h$ sequences $\{S_1, \dots, S_h\}$ over $m$ sites, a key…