Metadata-Version: 1.1
Name: gtfparse
Version: 1.1.0
Summary: GTF Parsing
Home-page: https://github.com/openvax/gtfparse
Author: Alex Rubinsteyn
Author-email: UNKNOWN
License: http://www.apache.org/licenses/LICENSE-2.0.html
Description: `Build Status <https://travis-ci.org/openvax/gtfparse>`__ `Coverage
        Status <https://coveralls.io/github/openvax/gtfparse?branch=master>`__
        
        gtfparse
        ========
        
        Parsing tools for GTF (gene transfer format) files.
        
        Example usage
        =============
        
        Parsing all rows of a GTF file into a Pandas DataFrame
        ------------------------------------------------------
        
        .. code:: python
        
           from gtfparse import read_gtf
        
           # returns GTF with essential columns such as "feature", "seqname", "start", "end"
           # alongside the names of any optional keys which appeared in the attribute column
           df = read_gtf("gene_annotations.gtf")
        
           # filter DataFrame to gene entries on chrY
           df_genes = df[df["feature"] == "gene"]
           df_genes_chrY = df_genes[df_genes["seqname"] == "Y"]
        
        Getting gene FPKM values from a StringTie GTF file
        --------------------------------------------------
        
        .. code:: python
        
           from gtfparse import read_gtf
        
           df = read_gtf(
               "stringtie-output.gtf",
               column_converters={"FPKM": float})
        
           gene_fpkms = {
               gene_name: fpkm
               for (gene_name, fpkm, feature)
               in zip(df["gene_name"], df["FPKM"], df["feature"])
               if feature == "gene"
           }
        
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Environment :: Console
Classifier: Operating System :: OS Independent
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Programming Language :: Python
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
