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  1. 2241
    por Wu, Tianqi, Guo, Zhiye, Cheng, Jianlin
    Publicado 2023
    “…AVAILABILITY AND IMPLEMENTATION: The source code of ATOMRefine is available in the GitHub repository (https://github.com/BioinfoMachineLearning/ATOMRefine). …”
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    Atomic protein structure refinement using all-atom graph representations and SE(3)-equivariant graph transformer
  2. 2242
    “…AVAILABILITY AND IMPLEMENTATION: The proposed refinement method is implemented as a Vaa3D plugin and the source code are available under the repository of vaa3d_tools/hackathon/Levy/refinement. …”
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    NRRS: a re-tracing strategy to refine neuron reconstruction
  3. 2243
    “…Compared with other methods, the experimental results demonstrate the superiority of the proposed model. The source code can be downloaded from https://github.com/zhangli190227/WCEENDAM-ILSTM.…”
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    PM2.5 concentration prediction using weighted CEEMDAN and improved LSTM neural network
  4. 2244
    “…An offline predictor source code with the best prediction model is available at (https://github.com/Nalinikanta7/metagenomics).…”
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    An Improved Machine Learning-Based Approach to Assess the Microbial Diversity in Major North Indian River Ecosystems
  5. 2245
    por Egorov, Artyom A, Atkinson, Gemma C
    Publicado 2023
    “…The command-line interface covers most practical use cases, while the provided Python API allows usage within a Python program and additional customization. Source code is available from the GitHub page: github.com/GCA-VH-lab/uorf4u. …”
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    uORF4u: a tool for annotation of conserved upstream open reading frames
  6. 2246
    “…AVAILABILITY AND IMPLEMENTATION: Source code and dataset information are at: https://github.com/arantir123/DDT_triple_prediction. …”
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    FLONE: fully Lorentz network embedding for inferring novel drug targets
  7. 2247
    “…The proposed benchmark dataset and source code are available at: https://github.com/kang-hongyu/LBMFF.…”
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    Drug–disease association prediction with literature based multi-feature fusion
  8. 2248
    por Yu, Hao, Wang, Yuqing, Zhang, Xi, Wang, Zheng
    Publicado 2023
    “…In addition to the website platform, we also provide a Docker version that can be easily deployed on private servers. The source code for GRACE is freely available at (https://github.com/th00516/GRACE). …”
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    GRACE: a comprehensive web-based platform for integrative single-cell transcriptome analysis
  9. 2249
    “…We also observed that NRPreTo achieved high performance on the external datasets and predicted 59 novel NRs in the human proteome. The source code of NRPreTo is publicly available at https://github.com/bozdaglab/NRPreTo.…”
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    NRPreTo: A Machine Learning-Based Nuclear Receptor and Subfamily Prediction Tool
  10. 2250
    por Essam, Marwa, Elsayed, Tamer
    Publicado 2023
    “…We, therefore, release our source code to promote research in that direction.…”
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    Unsupervised query reduction for efficient yet effective news background linking
  11. 2251
    “…The proposed network and dataset provide effective priors for the SR task of pathology images, which significantly improves the diagnosis of relevant medical staff. The source code and the dataset are available on https://github.com/MoyangSensei/CARN-Pytorch.…”
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    A super-resolution network using channel attention retention for pathology images
  12. 2252
    “…AVAILABILITY AND IMPLEMENTATION: Source code freely available for download at https://doi.org/10.5281/zenodo.6499747 and https://github.com/AluruLab/MCPNet, implemented in C++ and supported on Linux.…”
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    MCPNet: a parallel maximum capacity-based genome-scale gene network construction framework
  13. 2253
    “…Experimental results show that LSnet outperforms other methods in terms of the F1 score. The source code is available from GitHub at https://github.com/eioyuou/LSnet.…”
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    LSnet: detecting and genotyping deletions using deep learning network
  14. 2254
    “…AVAILABILITY AND IMPLEMENTATION: The source code is freely available at https://github.com/JieZheng-ShanghaiTech/KR4SL.…”
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    KR4SL: knowledge graph reasoning for explainable prediction of synthetic lethality
  15. 2255
    “…AVAILABILITY AND IMPLEMENTATION: The source code of TransFun is available at https://github.com/jianlin-cheng/TransFun.…”
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    Combining protein sequences and structures with transformers and equivariant graph neural networks to predict protein function
  16. 2256
    por Bafna, Mihir, Li, Hechen, Zhang, Xiuwei
    Publicado 2023
    “…AVAILABILITY AND IMPLEMENTATION: The source code and data is available at https://github.com/MihirBafna/CLARIFY.…”
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    CLARIFY: cell–cell interaction and gene regulatory network refinement from spatially resolved transcriptomics
  17. 2257
    “…AVAILABILITY AND IMPLEMENTATION: The source code, including scripts for the analysis of key findings, can be found at https://github.com/boooooogey/ATAConv, implemented in Python.…”
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    An intrinsically interpretable neural network architecture for sequence-to-function learning
  18. 2258
    “…An in-silico database with 282 million CCS values was generated for three different adduct types of 94 million compounds. Its source code is publicly available at https://github.com/zmzhang/SigmaCCS. …”
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    Highly accurate and large-scale collision cross sections prediction with graph neural networks
  19. 2259
    “…We demonstrate the advantages of mtANN over state-of-the-art methods for unseen cell-type identification and cell-type annotation on two benchmark dataset collections, as well as its predictive power on a collection of COVID-19 datasets. The source code and tutorial are available at https://github.com/Zhangxf-ccnu/mtANN.…”
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    Cell-type annotation with accurate unseen cell-type identification using multiple references
  20. 2260
    “…AVAILABILITY AND IMPLEMENTATION: fortuna source code is available at https://github.com/canzarlab/fortuna.…”
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    Counting pseudoalignments to novel splicing events
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