Metadata-Version: 2.1
Name: bookend-rna
Version: 1.0.0
Summary: End-guided transcript assembler for short and long RNA-seq reads.
Home-page: https://github.com/Gregor-Mendel-Institute/bookend
Author: Michael A. Schon
Author-email: michael.schon@gmi.oeaw.ac.at
License: UNKNOWN
Description: # /| bookend |\\  
        ### End-guided transcriptome assembly.  
        Bookend is a comprehensive framework for end-guided assembly of short-read, long-read, and end-capture RNA-seq data.
        Please see the [User Guide](Bookend_User_Guide.pdf) for a full description of the subcommands and arguments.
        
        ## Installation  
        Bookend can be installed through the Python Package Index (PyPI) on UNIX systems with Python 3.6+ using the command  
            pip install bookend-rna
        
        Once installed, all utilities can be accessed on the command as bookend subcommands:  
        
        usage: bookend [subcommand] [options] [input file(s)]
        Subcommands (use -h/--help for more info):
        
            label    (Label 5' and 3' ends in a FASTQ file)
            assemble (Assemble transcripts from aligned end-labeled reads)
            merge    (Merge assembled GTFs with a reference annotation)
        
            --end-labeled read (ELR) operations--
            make-elr
            sort-elr
            combine-elr
        
            --file conversion--
            bed-to-elr
            elr-to-bed
            gtf-to-bed
            sam-to-sj
            sj-to-bed
            sj-merge
        
            --setup/indexing--
            index-fasta
            softbridge-fasta
          
        
Keywords: transcriptome assembler bioinformatics rna sequencing
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Requires-Python: >=3.6
Description-Content-Type: text/markdown
