Metadata-Version: 2.1
Name: seqalign
Version: 0.1.8
Summary: Manage sequence alignments
Home-page: https://github.com/anthony-aylward/seqalign.git
Author: Anthony Aylward
Author-email: anthony.aylward@protonmail.com
License: UNKNOWN
Description: # seqalign
        
        Manage sequence alignments
        
        ## Installation
        
        ```sh
        pip3 install seqalign
        ```
        or
        ```sh
        pip3 install --user seqalign
        ```
        
        ## Examples
        
        ```python
        with SequenceAlignment(<path to input BAM or FASTQ file>) as sa:
            sa.cleans_up_bam = False
            sa.remove_supplementary_alignments()
            sa.samtools_sort(memory_limit=10)
            sa.samtools_index()
            sa.write(<path to output BAM file>)
        ```
        
        ## Notes
        
        The `input_file` argument to `SequenceAlignment()` should be a string for
        single-end reads or for data that is already aligned. For raw paired-end reads,
        it should be a tuple containing two strings giving the paths to the two
        FASTA / FASTQ files.
        
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Description-Content-Type: text/markdown
