Heng Li
- Yi: Open Foundation Models by 01.AI
2024/03/07 by 01. AI, AI, AI, 01. +65 · 2 voices · 102 citations
Computer Science · #Neural Networks and Applications #Image Processing and 3D Reconstruction
- Twelve years of SAMtools and BCFtools
2021/01/29 by Petr Danecek, James Bonfield, Jennifer Liddle +8 · 732 citations
Biochemistry, Genetics and Molecular Biology · #Gene expression and cancer classification #Genetic Mapping and Diversity in Plants and Animals #Genomics and Phylogenetic Studies
- Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm
2021/02/01 by Haoyu Cheng, Gregory T. Concepcion, Xiaowen Feng +2 · 321 citations
Biochemistry, Genetics and Molecular Biology · #Genetic Associations and Epidemiology #Genetic Mapping and Diversity in Plants and Animals #Genomics and Phylogenetic Studies
- Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM
2013/03/16 by Heng Li, Li, Heng · 202 citations
Biochemistry, Genetics and Molecular Biology · #Cell Image Analysis Techniques #FOS: Biological sciences #Genomics (q-bio.GN) #Genomics and Phylogenetic Studies #Viral Infectious Diseases and Gene Expression in Insects
- The complete sequence of a human genome
2022/03/31 by Sergey Nurk, Sergey Koren, Arang Rhie +97 · 126 citations
Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · #Chromosomal and Genetic Variations #Genomic variations and chromosomal abnormalities #Genomics and Phylogenetic Studies
- New strategies to improve minimap2 alignment accuracy
2021/10/07 by Heng Li · 83 citations
Biochemistry, Genetics and Molecular Biology · Agricultural and Biological Sciences · #Genomics and Phylogenetic Studies #RNA and protein synthesis mechanisms #Plant Virus Research Studies
- Efficient Architecture-Aware Acceleration of BWA-MEM for Multicore Systems
2019/07/27 by Vasimuddin Md, Sanchit Misra, Md, Vasimuddin +5 · 56 citations
Computer Science · Biochemistry, Genetics and Molecular Biology · #Algorithms and Data Compression #Genomics and Phylogenetic Studies #Network Packet Processing and Optimization
- Protein-to-genome alignment with miniprot
2022/10/14 by Heng Li, Li, Heng · 26 citations
Biochemistry, Genetics and Molecular Biology · #FOS: Biological sciences #Genomics (q-bio.GN) #Genomics and Phylogenetic Studies #Glycosylation and Glycoproteins Research #Machine Learning in Bioinformatics
- HTSlib: C library for reading/writing high-throughput sequencing data
2021/01/29 by James Bonfield, John Marshall, Petr Danecek +5 · 1 voice · 11 citations
Biochemistry, Genetics and Molecular Biology · #Genomics and Phylogenetic Studies #Genomics and Rare Diseases #Genetics, Bioinformatics, and Biomedical Research
- The design and construction of reference pangenome graphs
2020/03/13 by Heng Li, Xiaowen Feng, Li, Heng +3 · 10 citations
Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · #Chromosomal and Genetic Variations #FOS: Biological sciences #Genome Rearrangement Algorithms #Genomics (q-bio.GN) #Genomics and Phylogenetic Studies
- Complete Genomes Reveal Signatures of Demographic and Genetic Declines in the Woolly Mammoth
2015/04/25 by Eleftheria Palkopoulou, Swapan Mallick, Pontus Skoglund +10 · 1 voice · 4 citations
Biochemistry, Genetics and Molecular Biology · #Forensic and Genetic Research #Genetic diversity and population structure #Genomics and Phylogenetic Studies
- Dense RGB SLAM with Neural Implicit Maps
2023/01/21 by Heng Li, Xiaodong Gu, Li, Heng +9 · 6 citations
Engineering · Computer Science · #Robotics and Sensor-Based Localization #Advanced Vision and Imaging #Advanced Image and Video Retrieval Techniques
- Efficient near telomere-to-telomere assembly of Nanopore Simplex reads
2025/04/17 by Haoyu Cheng, Han Qu, Sean K. McKenzie +5 · 2 voices · 8 citations
Biochemistry, Genetics and Molecular Biology · Engineering · Medicine · #Advanced biosensing and bioanalysis techniques #Modular Robots and Swarm Intelligence #Tissue Engineering and Regenerative Medicine
- Understanding Quantum Software Engineering Challenges An Empirical Study on Stack Exchange Forums and GitHub Issues
2022/05/06 by Mohamed Raed El aoun, Heng Li, aoun, Mohamed Raed El +5 · 4 citations
Computer Science · Decision Sciences · #Cloud Computing and Resource Management #FOS: Computer and information sciences #Scientific Computing and Data Management #Software Engineering (cs.SE) #Software Engineering Research
- OccMamba: Semantic Occupancy Prediction with State Space Models
2024/08/19 by Heng Li, Li, Heng, Yuenan Hou +8 · 8 citations
Computer Science · Decision Sciences · #Computer Vision and Pattern Recognition (cs.CV) #Data Quality and Management #FOS: Computer and information sciences #Natural Language Processing Techniques #Topic Modeling
- Finding easy regions for short-read variant calling from pangenome data
2025/01/01 by Heng Li, Li, Heng · 3 voices · 4 citations
Biochemistry, Genetics and Molecular Biology · #Genomics and Rare Diseases #Genomics and Phylogenetic Studies #Genomic variations and chromosomal abnormalities
- The date of interbreeding between Neandertals and modern humans
2012/08/10 by Sriram Sankararaman, Sankararaman, Sriram, Nick Patterson +7 · 2 citations
Arts and Humanities · Biochemistry, Genetics and Molecular Biology · Social Sciences · #Applications (stat.AP) #FOS: Biological sciences #FOS: Computer and information sciences #Forensic Anthropology and Bioarchaeology Studies #Forensic and Genetic Research #Pleistocene-Era Hominins and Archaeology #Populations and Evolution (q-bio.PE)
- Black-box Adversarial Example Attack towards FCG Based Android Malware Detection under Incomplete Feature Information
2023/03/15 by Heng Li, Li, Heng, Cheng, Zhang +10 · 4 citations
Computer Science · #Advanced Malware Detection Techniques #Network Security and Intrusion Detection #Anomaly Detection Techniques and Applications
- Exploring gene content with pangene graphs
2024/02/25 by Heng Li, Li, Heng, Maximillian G. Marin +3 · 4 citations
Biochemistry, Genetics and Molecular Biology · #Genomics and Phylogenetic Studies #Genome Rearrangement Algorithms #Genomic variations and chromosomal abnormalities
- Frequency-mixed Single-source Domain Generalization for Medical Image Segmentation
2023/07/18 by Heng Li, Haojin Li, Li, Heng +11 · 3 citations
Computer Science · Medicine · #Domain Adaptation and Few-Shot Learning #COVID-19 diagnosis using AI #Radiomics and Machine Learning in Medical Imaging
- BWT construction and search at the terabase scale
2024/09/01 by Heng Li, Li, Heng · 1 voice · 3 citations
#q-bio.GN
- An Empirical Study of the Impact of Hyperparameter Tuning and Model Optimization on the Performance Properties of Deep Neural Networks
2022/04/09 by Lizhi Liao, Heng Li, Weiyi Shang +1 · 2 citations
- Understanding and Estimating the Execution Time of Quantum Circuits
2024/11/23 by Ning Ma, Heng Li, Ma, Ning +1 · 5 citations
Computer Science · #Cloud Computing and Resource Management #FOS: Computer and information sciences #Parallel Computing and Optimization Techniques #Quantum Computing Algorithms and Architecture #Software Engineering (cs.SE)
- Particle swarm optimization for resource-constrained project scheduling
2005/08/04 by Hong Zhang, Heng Li, C. M. Tam +1 · 1 citation
Decision Sciences · Engineering · #Resource-Constrained Project Scheduling #Scheduling and Optimization Algorithms #BIM and Construction Integration
- Content-Preserving Diffusion Model for Unsupervised AS-OCT image Despeckling
2023/06/30 by Li Sanqian, Sanqian, Li, Risa Higashita +9 · 2 citations
Computer Science · Engineering · Medicine · #FOS: Computer and information sciences #FOS: Electrical engineering #Graphics (cs.GR) #Image and Signal Denoising Methods #Image and Video Processing (eess.IV) #Optical Coherence Tomography Applications #Retinal Imaging and Analysis #electronic engineering #information engineering
- SeePhys: Does Seeing Help Thinking? -- Benchmarking Vision-Based Physics Reasoning
2025/05/25 by Kun Xiang, Heng Li, Xiang, Kun +25 · 9 citations
Computer Science · Social Sciences · #Artificial Intelligence (cs.AI) #Data Visualization and Analytics #FOS: Computer and information sciences #FOS: Physical sciences #Multimodal Machine Learning Applications #Physics Education (physics.ed-ph) #Popular Physics (physics.pop-ph) #Science Education and Pedagogy
- Studying Logging Practice in Machine Learning-based Applications
2023/01/10 by Patrick Loic Foalem, Foutse Khomh, Foalem, Patrick Loic +3 · 2 citations
Computer Science · #Cloud Computing and Resource Management #FOS: Computer and information sciences #IoT and Edge/Fog Computing #Software Engineering (cs.SE) #Software System Performance and Reliability
- NRG Oncology White Paper on the Relative Biological Effectiveness in Proton Therapy
2025/01/01 by Harald Paganetti, Charles B. Simone, Walter R. Bosch +11 · 3 citations
- Further new complex daphniphyllum alkaloids from the stems and leaves of Daphniphyllum calycinum: Structure and stereochemistry
2020/10/03 by Shou-Mao Shen, Shou‐Mao Shen, Heng Li +6 · 1 citation
Chemistry · Pharmacology, Toxicology and Pharmaceutics · #Advanced Synthetic Organic Chemistry #Chemical synthesis and alkaloids #Plant-based Medicinal Research
- Protecting Privacy in Software Logs: What Should Be Anonymized?
2024/09/17 by Roozbeh Aghili, Heng Li, Aghili, Roozbeh +3 · 3 citations
Decision Sciences · #Auction Theory and Applications
- Structure-consistent Restoration Network for Cataract Fundus Image Enhancement
2022/06/09 by Heng Li, Li, Heng, Haofeng Liu +13 · 1 citation
Engineering · Medicine · #Computer Vision and Pattern Recognition (cs.CV) #FOS: Computer and information sciences #FOS: Electrical engineering #Image and Video Processing (eess.IV) #Optical Coherence Tomography Applications #Retinal Diseases and Treatments #Retinal Imaging and Analysis #electronic engineering #information engineering
- Bug Characteristics in Quantum Software Ecosystem
2022/04/25 by Mohamed Raed El aoun, aoun, Mohamed Raed El, Heng Li +5 · 1 citation
Computer Science · #Cloud Computing and Resource Management #FOS: Computer and information sciences #Quantum Computing Algorithms and Architecture #Quantum Information and Cryptography #Software Engineering (cs.SE)
- On-site safety inspection of tower cranes: A blockchain-enabled conceptual framework
2022/05/16 by Haitao Wu, Botao Zhong, Heng Li +2 · 1 citation
Decision Sciences · Engineering · Health Professions · #Digital Transformation in Industry #Occupational Health and Safety Research #Risk and Safety Analysis
- Multi-objective optimization of shading devices using ensemble machine learning and orthogonal design of experiments
2023/01/31 by Rashed Alsharif, Mehrdad Arashpour, Emad Golafshani +3 · 1 citation
Engineering · Materials Science · #Building Energy and Comfort Optimization #Textile materials and evaluations #Additive Manufacturing and 3D Printing Technologies
- Impact of Extensions on Browser Performance: An Empirical Study on Google Chrome
2024/04/10 by Bihui Jin, Heng Li, Jin, Bihui +3 · 1 voice
Computer Science · #FOS: Computer and information sciences #Human-Computer Interaction (cs.HC) #Performance (cs.PF) #Software Engineering (cs.SE) #cs.HC #cs.PF #cs.SE
- HA-VLN 2.0: An Open Benchmark and Leaderboard for Human-Aware Navigation in Discrete and Continuous Environments with Dynamic Multi-Human Interactions
2025/03/18 by Yifei Dong, Dong, Yifei, Fengyi Wu +20 · 4 citations
Computer Science · Psychology · #Multimodal Machine Learning Applications #Social Robot Interaction and HRI #Robotic Path Planning Algorithms
- Preprocessing is All You Need: Boosting the Performance of Log Parsers With a General Preprocessing Framework
2024/12/06 by Qiaolin Qin, Qin, Qiaolin, Roozbeh Aghili +5 · 3 citations
Computer Science · #Natural Language Processing Techniques
- Deploying Deep Reinforcement Learning Systems: A Taxonomy of Challenges
2023/08/23 by Ahmed Haj Yahmed, Altaf Allah Abbassi, Yahmed, Ahmed Haj +7 · 1 citation
Computer Science · #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Mobile Crowdsensing and Crowdsourcing #Open Source Software Innovations #Software Engineering (cs.SE) #Software Engineering Research
- Detecting Refactoring Commits in Machine Learning Python Projects: A Machine Learning-Based Approach
2024/04/09 by Shayan Noei, Noei, Shayan, Heng Li +3 · 1 citation
Computer Science · #Software Engineering Research #Software Engineering Techniques and Practices #Advanced Malware Detection Techniques
- Characterizing and Classifying Developer Forum Posts with their Intentions
2023/12/21 by Xingfang Wu, Eric Laufer, Wu, Xingfang +9 · 1 citation
Computer Science · #Computation and Language (cs.CL) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Software Engineering (cs.SE) #Software Engineering Research #Topic Modeling #Web Data Mining and Analysis
- PanTS: The Pancreatic Tumor Segmentation Dataset
2025/07/02 by Wenxuan Li, Li, Wenxuan, Zhou, Xinze +32 · 6 citations
Computer Science · Medicine · #AI in cancer detection #Advanced Neural Network Applications #Computer Vision and Pattern Recognition (cs.CV) #FOS: Computer and information sciences #FOS: Electrical engineering #Image and Video Processing (eess.IV) #Pancreatic and Hepatic Oncology Research #electronic engineering #information engineering
- A science mapping-based review of work-related musculoskeletal disorders among construction workers
2023/02/03 by Maxwell Fordjour Antwi‐Afari, Maxwell Fordjour Antwi-Afari, Heng Li +8 · 1 citation
Medicine · Health Professions · #Musculoskeletal pain and rehabilitation #Occupational Health and Safety Research #Workplace Health and Well-being
- Challenges in structural variant calling in low-complexity regions
2025/09/27 by Qian Qin, Qin, Qian, Heng Li +1 · 2 voices · 1 citation
#q-bio.GN
- Enhanced Second-Harmonic Generation in Thin-Film Lithium Niobate Circular Bragg Nanocavity
2024/07/02 by Zhen Li, Li, Zengya, Z.Q. Hu +14 · 1 citation
Engineering · Physics and Astronomy · #Advanced Fiber Laser Technologies #FOS: Physical sciences #Optics (physics.optics) #Photonic and Optical Devices #Photorefractive and Nonlinear Optics
- Toward a density Corrádi--Hajnal theorem for degenerate hypergraphs
2023/11/26 by Jianfeng Hou, Caiyun Hu, Hou, Jianfeng +9 · 1 citation
Computer Science · Mathematics · #Advanced Graph Theory Research #Combinatorics (math.CO) #FOS: Mathematics #Graph theory and applications #Limits and Structures in Graph Theory
- Improving spliced alignment by modeling splice sites with deep learning
2025/06/15 by Siying Yang, Yang, Siying, Neng Huang +3 · 3 voices
#q-bio.GN
- Fast genomic read alignment with minibwa
2026/06/13 by Heng Li, Nils Homer · 4 voices
#q-bio.GN
- Fundus Image Quality Assessment and Enhancement: a Systematic Review
2025/01/20 by Heng Li, Haojin Li, Li, Heng +13 · 1 citation
Medicine · #Computer Vision and Pattern Recognition (cs.CV) #FOS: Computer and information sciences #FOS: Electrical engineering #Image and Video Processing (eess.IV) #Retinal Imaging and Analysis #electronic engineering #information engineering
- On the boundedness of degenerate hypergraphs
2024/06/29 by Jianfeng Hou, Hou, Jianfeng, Caiyun Hu +9 · 1 citation
Mathematics · #Combinatorics (math.CO) #FOS: Mathematics #Graph theory and applications #advanced mathematical theories
- An Efficient Model Maintenance Approach for MLOps
2024/12/05 by Forough Majidi, Majidi, Forough, Foutse Khomh +5 · 1 citation
Computer Science · #FOS: Computer and information sciences #Machine Learning (cs.LG) #Natural Language Processing Techniques #Semantic Web and Ontologies #Software Engineering (cs.SE)
- Energy-Efficient Software Development: A Multi-dimensional Empirical Analysis of Stack Overflow
2024/09/28 by Bihui Jin, Heng Li, Jin, Bihui +3 · 1 citation
Decision Sciences · #FOS: Computer and information sciences #Impact of AI and Big Data on Business and Society #Performance (cs.PF) #Software Engineering (cs.SE) #Technology Adoption and User Behaviour
- High-resolution metagenome assembly for modern long reads with myloasm
2025/09/06 by Jim Shaw, Maximillian G. Marin, Heng Li · 1 voice · 2 citations
Biochemistry, Genetics and Molecular Biology · Environmental Science · #Bacteriophages and microbial interactions #Genomics and Phylogenetic Studies #Microbial Community Ecology and Physiology
- GaussianAvatar-Editor: Photorealistic Animatable Gaussian Head Avatar Editor
2025/01/17 by Xiangyue Liu, Kunming Luo, Liu, Xiangyue +11 · 1 citation
Computer Science · Engineering · #Augmented Reality Applications #Computer Vision and Pattern Recognition (cs.CV) #FOS: Computer and information sciences #Human Motion and Animation #Virtual Reality Applications and Impacts
- Revisiting Lossy Verification in Speculative Decoding: Mechanisms, Trade-offs, and Failure Modes
2026/07/29 by Tianyu Wang, Yuxuan Zhou, Wenbin Wang +3
Computer Science · #cs.CL
- FSE: Continual Learning for Named Entity Recognition by Fast-Slow Experts
2026/07/24 by Yunan Zhang, Yang Fan, Heng Li +2
#cs.CL #cs.AI
- Backend-Aware Graph Learning for Denoising Outcome Distributions in Quantum Program Testing
2026/07/25 by Ning Ma, Jun Dai, Heng Li
#cs.SE
- Nearly linear lattice coverings of arbitrary convex bodies
2026/07/30 by Heng Li, Xizhi Liu
Mathematics · #math.MG #math.CO
- Grasp, Handover, Rotate: Bimanual Object Reorientation via Compositional Diffusion and Energy-Based Optimization
2026/07/23 by Wun Lam Yeung, Wenjun Liu, Yui Cheung Yu +5
#cs.RO