Advanced search in Research products
Research products
arrow_drop_down
Searching FieldsTerms
Any field
arrow_drop_down
includes
arrow_drop_down
Include:
The following results are related to Digital Humanities and Cultural Heritage. Are you interested to view more results? Visit OpenAIRE - Explore.
33 Research products, page 1 of 4

  • Digital Humanities and Cultural Heritage
  • Research software
  • 2013-2022
  • Open Source
  • Digital Humanities and Cultural Heritage

10
arrow_drop_down
Date (most recent)
arrow_drop_down
  • Research software . 2022
    Open Source Shell
    Authors: 
    Trieu, Hai-Long;
    Publisher: bio.tools

    BioVAE is a pre-trained latent variable language model for biomedical text mining. Large scale pre-trained language models (PLMs) have advanced state-of-the-art (SOTA) performance on various biomedical text mining tasks. The power of such PLMs can be combined with the advantages of deep generative models. These are examples of these combinations. However, they are trained only on general domain text, and biomedical models are still missing. In this work, we describe BioVAE, the first large scale pre-trained latent variable language model for the biomedical domain, which uses the OPTIMUS framework to train on large volumes of biomedical text. The model shows SOTA performance on several biomedical text mining tasks when compared to existing publicly available biomedical PLMs.

  • Research software . 2022
    Open Source
    Authors: 
    Zhu, Xiaolei;
    Publisher: bio.tools

    BERT-Kcr is a tool for prediction of lysine crotonylation sites by a transfer learning method with pre-trained BERT models.

  • Research software . 2022
    Open Source Python
    Authors: 
    Elnaggar, Ahmed; Heinzinger, Michael; Dallago, Christian; Wang, Yu;
    Publisher: bio.tools

    ProtTrans is providing state of the art pre-trained models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using various Transformers Models.

  • Research software . 2021
    Open Source R
    Authors: 
    Tsiamis, Vasileios; Schwämmle, Veit;
    Publisher: bio.tools

    VIQoR, is a user-friendly web service for Visually supervised protein Inference and protein Quantification implemented in R. The Shiny web interface integrates the post-identification processes involved in protein inference and relative protein abundance summarization, along with smart and novel interactive visualization modules to support the common researchers with a straight-forward tool for protein quantification, data browsing and data inspection.

  • Research software . 2021
    Open Source
    Authors: 
    Lever, Jake;
    Publisher: bio.tools

    CoronaCentral is a tool for analyzing the vast coronavirus literature with CoronaCentral.

  • Research software . 2021
    Open Source
    Authors: 
    Biofactoid;
    Publisher: bio.tools

    Biofactoid is a web-based system that empowers authors to capture and share machine-readable summaries of molecular-level interactions described in their publications.

  • Research software . 2021
    Open Source Python
    Authors: 
    Lu, Zhiyong;
    Publisher: bio.tools

    COVID-19-CT-CXR is a public database of COVID-19 CXR and CT images, which are automatically extracted from COVID-19-relevant articles from the PubMed Central Open Access (PMC-OA) Subset.

  • Open Source English
    Authors: 
    Nan, Bai; Renqian, Luo;
    Publisher: Zenodo
    Project: EC | HERILAND (813883)

    WHOSe Heritage: Classification of UNESCO World Heritage "Outstanding Universal Value" Documents with Smoothed Labels This repository provides the supplemental materials for reproducing the results of the above-mentioned paper as submitted to arXiv preprint server, including both models and results.

  • Research software . 2021
    Open Source R
    Authors: 
    Arnold, James N.; Kordasti, Shahram;
    Publisher: bio.tools

    A computational framework for the non-specialist to profile cellular heterogeneity in cytometry datasets. The immunoCluster package uses the scDataViz bioconductor package’s vizualization tools and adaptation of the SingleCellExperiment data structure to build simple and flexible cytometry analysis workflows like those outlined in Nowicka et al. (2017) CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets.

  • Research software . 2019
    Open Source
    Authors: 
    Lu, Zhiyong;
    Publisher: bio.tools

    Web-based application that provides computer-annotated biomedical concepts, such as genes and mutations, in PubMed citations and PMC full-text articles.

Advanced search in Research products
Research products
arrow_drop_down
Searching FieldsTerms
Any field
arrow_drop_down
includes
arrow_drop_down
Include:
The following results are related to Digital Humanities and Cultural Heritage. Are you interested to view more results? Visit OpenAIRE - Explore.
33 Research products, page 1 of 4
  • Research software . 2022
    Open Source Shell
    Authors: 
    Trieu, Hai-Long;
    Publisher: bio.tools

    BioVAE is a pre-trained latent variable language model for biomedical text mining. Large scale pre-trained language models (PLMs) have advanced state-of-the-art (SOTA) performance on various biomedical text mining tasks. The power of such PLMs can be combined with the advantages of deep generative models. These are examples of these combinations. However, they are trained only on general domain text, and biomedical models are still missing. In this work, we describe BioVAE, the first large scale pre-trained latent variable language model for the biomedical domain, which uses the OPTIMUS framework to train on large volumes of biomedical text. The model shows SOTA performance on several biomedical text mining tasks when compared to existing publicly available biomedical PLMs.

  • Research software . 2022
    Open Source
    Authors: 
    Zhu, Xiaolei;
    Publisher: bio.tools

    BERT-Kcr is a tool for prediction of lysine crotonylation sites by a transfer learning method with pre-trained BERT models.

  • Research software . 2022
    Open Source Python
    Authors: 
    Elnaggar, Ahmed; Heinzinger, Michael; Dallago, Christian; Wang, Yu;
    Publisher: bio.tools

    ProtTrans is providing state of the art pre-trained models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using various Transformers Models.

  • Research software . 2021
    Open Source R
    Authors: 
    Tsiamis, Vasileios; Schwämmle, Veit;
    Publisher: bio.tools

    VIQoR, is a user-friendly web service for Visually supervised protein Inference and protein Quantification implemented in R. The Shiny web interface integrates the post-identification processes involved in protein inference and relative protein abundance summarization, along with smart and novel interactive visualization modules to support the common researchers with a straight-forward tool for protein quantification, data browsing and data inspection.

  • Research software . 2021
    Open Source
    Authors: 
    Lever, Jake;
    Publisher: bio.tools

    CoronaCentral is a tool for analyzing the vast coronavirus literature with CoronaCentral.

  • Research software . 2021
    Open Source
    Authors: 
    Biofactoid;
    Publisher: bio.tools

    Biofactoid is a web-based system that empowers authors to capture and share machine-readable summaries of molecular-level interactions described in their publications.

  • Research software . 2021
    Open Source Python
    Authors: 
    Lu, Zhiyong;
    Publisher: bio.tools

    COVID-19-CT-CXR is a public database of COVID-19 CXR and CT images, which are automatically extracted from COVID-19-relevant articles from the PubMed Central Open Access (PMC-OA) Subset.

  • Open Source English
    Authors: 
    Nan, Bai; Renqian, Luo;
    Publisher: Zenodo
    Project: EC | HERILAND (813883)

    WHOSe Heritage: Classification of UNESCO World Heritage "Outstanding Universal Value" Documents with Smoothed Labels This repository provides the supplemental materials for reproducing the results of the above-mentioned paper as submitted to arXiv preprint server, including both models and results.

  • Research software . 2021
    Open Source R
    Authors: 
    Arnold, James N.; Kordasti, Shahram;
    Publisher: bio.tools

    A computational framework for the non-specialist to profile cellular heterogeneity in cytometry datasets. The immunoCluster package uses the scDataViz bioconductor package’s vizualization tools and adaptation of the SingleCellExperiment data structure to build simple and flexible cytometry analysis workflows like those outlined in Nowicka et al. (2017) CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets.

  • Research software . 2019
    Open Source
    Authors: 
    Lu, Zhiyong;
    Publisher: bio.tools

    Web-based application that provides computer-annotated biomedical concepts, such as genes and mutations, in PubMed citations and PMC full-text articles.