Metadata-Version: 2.1
Name: feature-merge
Version: 1.0.2
Summary: Merge overlapping features of GFF/GTF files.
Home-page: https://github.com/brinkmanlab/feature_merge
Author: Nolan Woods
Author-email: nolan_w@sfu.ca
License: MIT Amended
Description: .. image:: https://zenodo.org/badge/166121742.svg
            :target: https://zenodo.org/badge/latestdoi/166121742
        
        =============
        feature_merge
        =============
        Merge features in GFF files
        
        Installation::
        
            pip install feature-merge
        
        or::
        
            conda install feature_merge
        
        or::
        
            git clone https://github.com/brinkmanlab/feature_merge.git
            cd feature_merge
            ./setup.py install
        
        Usage::
        
            feature_merge [-i] [-e] [-x] [-v] [-m merge|append|error|skip|replace] [-f type[,type..]].. <input1> [<input_n>..]
            Accepts GFF or GTF format.
            -v Print version and exit
            -f Comma seperated types of features to merge. Must be terms or accessions from the SOFA sequence ontology, \"ALL\", or \"NONE\". (Can be provided more than once to specify multiple merge groups)
            -i Ignore strand, merge feature regardless of strand
            -x Only merge features with identical coordinates
            -e Exclude component features from output
            -m Merge strategy used to deal with id collisions between input files.
                merge: attributes of all features with the same primary key will be merged
                append: entry will have a unique, autoincremented primary key assigned to it (default)
                error: exception will be raised. This means you will have to edit the file yourself to fix the duplicated IDs
                skip: ignore duplicates, emitting a warning
                replace: keep last duplicate
                
        See CONTRIBUTING.rst_ for information on contributing to this repo.
        
        .. _CONTRIBUTING.rst: CONTRIBUTING.rst
        
        
Keywords: merge,bioinformatics,gff,features,overlap
Platform: UNKNOWN
Classifier: Environment :: Console
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: POSIX
Classifier: Programming Language :: Python :: 3.7
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Description-Content-Type: text/x-rst; charset=UTF-8
