Metadata-Version: 1.1
Name: prapi
Version: 6.2.0
Summary: Transcriptome Analysis Pipeline for Isoform Sequencing
Home-page: http://www.bioinfor.org/tool/PRAPI/
Author: gaoyubang
Author-email: 1489582340@qq.com
License: MIT
Description: =============
        Prapi Summary
        =============
        More Detail information is on http://www.bioinfor.org/tool/PRAPI/.
        
        PRAPI is a one-stop solution for Iso-Seq analysis of analyze alternative transcription initiation (ATI), alternative splicing (AS), alternative cleavage and polyadenylation (APA), natural antisense transcripts (NAT), and circular RNAs (circRNAs) comprehensively. 
        
        ============
        Update
        ============
        | 2019.9.6
        |         Fix APA support number Bugs.
        
        ============
        Installation
        ============
        
        | Basic prapi installation (python 2.7 support)
        
        
        | Before install,Please install these base.
        | $conda install -y -c bioconda bx-python
        | $conda install -y -c bioconda pycairo
        | $conda install -c bioconda pysam
        | $conda install -c bioconda gmap
        | $conda install -c biocodna samtools==0.1.19
        | $conda install -c bioconda  gmap==2016.09.23
        | $conda install -c bioconda cufflinks==2.2.1
        | $conda install -c bioconda bioconductor-edger
        | $conda install -c bioconda bioconductor-degseq
        | $pip install scipy
        | $pip install fisher
        | $pip install CIRCexplorer
        | $wget http://www.bioinfor.org/tool/PRAPI/download/SpliceGrapher-0.2.5.tar.gz
        | $tar -xzvf SpliceGrapher-0.2.5.tar.gz
        | $cd SpliceGrapher-0.2.5
        | $python setup.py install
        | #After this,Please install prapi
        | $pip install prapi
        | ####################################
        | #test file 
        | wget http://www.bioinfor.org/tool/PRAPI/download/v2/test_v2.tar.gz
        | tar -xvzf test_v2.tar.gz
        | cd test_v2
        | sh run.sh
        | ####################################
        | See more complete tutorials on the `documentation page <http://www.bioinfor.org/tool/PRAPI/manual.php>`_.
        
        ===
        RNA
        ===
        
        
        =====================
        Further Documentation
        =====================
        
        ========
        Citation
        ========
        
        Gao Y, Wang H, Zhang H, Wang Y, Chen J, Gu L, (2017), PRAPI: post-transcriptional regulation analysis pipeline for Iso-Seq.Bioinformatics,Bioinformatics, btx830,https://doi.org/10.1093/bioinformatics/btx830 
        
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Environment :: Console
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: POSIX
Classifier: Programming Language :: Python
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires: SpliceGrapher
Requires: numpy
Requires: matplotlib
Requires: pysam
Requires: pycairo
