Metadata-Version: 2.1
Name: babachi
Version: 1.3.3
Summary: UNKNOWN
Home-page: https://github.com/autosome-ru/BABACHI
Author: Sergey Abramov, Alexandr Boytsov
Author-email: aswq22013@gmail.com
License: UNKNOWN
Description: # BABACHI: Backgroud Allelic Dosage Bayesian Checkpoint Identification
        BABACHI is a tool for constant Background Allelic Dosage (BAD) genome regions calling from
        non-phased heterozygous SNPs. It is aimed at estimation of BAD on low-coverage sequencing data, where
        the precise estimation of allelic copy numbers is not possible.
        
        BAD corresponds to the ratio of Major copy number to Minor copy number.
        
        BABACHI takes in a vcf-like .tsv file with heterozygous SNPs sorted by genome positions (ascending).
        The input file must contain the following first 7 columns:
        chromosome, position, ID, reference base, alternative base, reference read count, alternative read count
        All lines, starting with # are ignored.
        
        The output is a .bed file with BAD annotations.
        
        ## Installation
        
        ```
        pip3 install babachi 
        ```
        
        ## Requirements
        ```
        python >= 3.6
        ```
        
        ## Usage
        ```
        babachi <options>...
        ```
        To get full usage description one can execute:
        ```
        babachi --help
        ```
        
        ## Quick start
        To perform a test run:
        ```
        babachi --test
        ```
        
        
        The BABACHI tool is maintained by Sergey Abramov and Alexandr Boytsov.
        
Platform: UNKNOWN
Requires-Python: >=3.6
Provides-Extra: dev
