Metadata-Version: 2.1
Name: liqa
Version: 1.1.12
Summary: A statistical tool to quantify isoform-specific expression using long-read RNA-seq
Home-page: https://github.com/WGLab/LIQA
Author: Yu Hu
Author-email: huyu999999@gmail.com
License: MIT
Description: # Long-read Isoform Quantification and Analysis
        LIQA (Long-read Isoform Quantification and Analysis) is an Expectation-Maximization based statistical method to quantify isoform expression and detect differential alternative splicing (DAS) events using long-read RNA-seq data. LIQA incorporates base-pair quality score and isoform-specific read length information to assign different weights across reads instead of summarizing isoform-specific read counts directly. Moreover, LIQA can detect DAS events between conditions using isoform usage estimates.
        
        ## Computational pipeline of LIQA
        <p align="center">
          <img width="575" height="406" src="doc/liqa_flowchart.png">
        </p>
        
        ## Inputs of LIQA
        The input of LIQA is long-read RNA-seq read data in BAM format together with a refrence isoform annotation file.
        
        ## Installation
        Please refer to [Installation](https://github.com/WGLab/LIQA/blob/master/doc/Install.md) for how to install LIQA.
        
        ## Usage
        Please refere to [Usage](https://github.com/WGLab/LIQA/blob/master/doc/Usage.md) for how to use LIQA.
        
        ## Contact
        
        If you have any questions/issues/bugs, please post them on [GitHub](https://github.com/WGLab/LIQA/issues). They would also be helpful to other users. 
        
        ## Citation
        
        Yu Hu, Li Fang, Xuelian Chen, Jiang F. Zhong, Mingyao Li, Kai Wang. LIQA: Long-read Isoform Quantification and Analysis. 2020. bioRxiv doi: [https://doi.org/10.1101/2020.09.09.289793](https://www.biorxiv.org/content/10.1101/2020.09.09.289793v1)
        
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Description-Content-Type: text/markdown
