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  • BERTLocRNA Public

    Using Large language model to predict localization

    1 1 MIT License Updated Apr 22, 2024

  • LLMbenchmarking Public

    Benchmarking the language model in genomic and transcriptome level

    Updated Apr 22, 2024

  • DeepLocRNA Public

    This is the counterpart of DeepLoc, but in RNA level

    Jupyter Notebook 4 1 Updated Feb 20, 2024

  • graph-part Public

    Forked from graph-part/graph-part

    A biological sequence data partitioning method

    Jupyter Notebook BSD 3-Clause "New" or "Revised" License Updated Oct 26, 2023

  • DeepRNAgenerator Public

    This is used to generate optimized RNA for vaccine design

    1 Updated Oct 12, 2023

  • RNA-localization Public

    This repository can be used to data sharing, code sharing, and feedbacks

    machine-learning rna-localization
    Python 2 Updated Oct 6, 2023

  • DNABERT Public

    Forked from jerryji1993/DNABERT

    DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome

    Python Updated Jun 28, 2023

  • Xenium_benchmarking Public

    Forked from Moldia/Xenium_benchmarking

    Code used to benchmark Xenium

    Jupyter Notebook Updated Feb 13, 2023

  • cytoself Public

    Forked from royerlab/cytoself

    Self-supervised models for encoding protein localization patterns from microscopy images

    Python BSD 3-Clause "New" or "Revised" License Updated Nov 13, 2022

  • Deep-Learning Public

    Forked from priya-dwivedi/Deep-Learning
    Jupyter Notebook MIT License Updated Jul 1, 2022

  • IntroToML-scVAE Public

    Forked from Center-for-Health-Data-Science/IntroToML

    This is an instruction for scVAE about how it works and how to run the demo scripts

    Jupyter Notebook GNU General Public License v3.0 Updated May 31, 2022

  • CellphoneDB Public

    Forked from ventolab/CellphoneDB

    CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.

    Python MIT License Updated Feb 25, 2022

  • cell2location Public

    Forked from BayraktarLab/cell2location

    Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)

    Python Apache License 2.0 Updated Feb 13, 2022

  • ST_simulation Public

    Forked from emdann/ST_simulation
    Python Updated Sep 13, 2021

  • RCTD Public

    Forked from dmcable/spacexr
    HTML GNU General Public License v3.0 Updated Aug 18, 2021

  • scDeepCluster Public

    Forked from ttgump/scDeepCluster

    scDeepCluster for Single Cell RNA-seq data

    Jupyter Notebook Apache License 2.0 Updated Jul 16, 2021

  • UHCA Public

    Forked from ventolab/UHCA

    UHCA

    Jupyter Notebook Updated Jan 4, 2021

  • delfi_scripts Public

    Forked from cancer-genomics/delfi_scripts
    R 1 Updated Aug 6, 2020

  • GNL_Scorer Public

    this is a software for sgRNA activity prediction with great generalization

    C 8 3 Updated May 18, 2020

  • CRISPR-TRAP-seq Public

    This is a ML learning model to predict the gRNA efficiency of trap-based editing system. eg.ABE, CBE, Cas9

    Jupyter Notebook 2 1 MIT License Updated May 13, 2020

  • Trap-seq-Data-Processing Public

    The scripts of score comparison shown in the Trap-seq paper

    MIT License Updated May 12, 2020

  • ichorCNA Public

    Forked from broadinstitute/ichorCNA

    Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.

    R GNU General Public License v3.0 Updated May 6, 2020

  • Rankcomp Public

    This is a learning framework to extract the DEG (Differential expression genes) by high fided gene pairs

    Python 1 Updated Apr 23, 2020

  • Trap-CRISPR Public

    This is a ML learning model to predict the gRNA efficiency of trap-based editing system. eg.ABE, CBE, Cas9

    MIT License Updated Apr 20, 2020

  • ABE_CBE_spCas9 Public

    Model with great generalization applied in the trap-ABE, trap-CBE, and trap-spCas9

    MIT License Updated Apr 20, 2020

  • Rankcomp2 Public

    A learning framework to get DEG(Differential expression genes)

    1 MIT License Updated Apr 19, 2020

  • Find_cell_marker Public

    This is a software for identifying the cell type for single cell analysing

    Python 3 Updated Jun 16, 2019

  • GNL_script Public

    The script of the paper

    Updated Jun 12, 2019

  • GNL_supplementary_script Public

    Updated Jun 12, 2019

  • hellow-world Public

    this is my first time in github

    Updated Jun 12, 2019