Metadata-Version: 2.1
Name: sam2lca
Version: 0.3.2
Summary: Last Commont Ancestor on SAM/BAM/CRAM alignment files
Home-page: https://github.com/maxibor/sam2lca
License: GNU-GPLv3
Description: ![sam2lca-CI](https://github.com/maxibor/sam2lca/workflows/sam2lca-CI/badge.svg) [![Documentation Status](https://readthedocs.org/projects/sam2lca/badge/?version=latest)](https://sam2lca.readthedocs.io/en/latest/?badge=latest)
        # sam2lca
        
        [Lowest Common Ancestor](https://en.wikipedia.org/wiki/Lowest_common_ancestor) from a SAM/BAM/CRAM sequence alignment file
        
        ## Quick start
        
        Quick analyis of sequencing reads aligned to a DNA database
        
        ```bash
        sam2lca analyze myfile.bam
        ```
        
        See all options
        
        ```bash
        sam2lca --help
        sam2lca update-db --help
        sam2lca analyze --help
        ```
        
        ## Installation
        
        ### From source
        
        ```bash
        git clone git@github.com:maxibor/sam2lca.git
        conda env create -f environment.yml
        conda activate sam2lca
        pip install git+ssh://git@github.com/maxibor/sam2lca.git
        ```
        
        ### From Conda
        
        ```bash
        conda install -c conda-forge -c bioconda -c maxibor sam2lca
        ```
        ### From Pypi
        
        ```bash
        pip install sam2lca
        ```
        
        ## Documentation
        
        The documentation is available here: [sam2lca.readthedocs.io](https://sam2lca.readthedocs.io)
Platform: UNKNOWN
Requires-Python: >=3.6
Description-Content-Type: text/markdown
