eliminates chimeric reads by comparing the UMI sequences and finding any matches in the 5 prime or 3 prime UMIs and keeping the sequence that has the highest prevalence
Project description
Chimera_Buster
This package takes concensus fasta files from the MrHamer pipeline and eliminates chimeric reads by comparing the UMI sequences and finding any matches in the 5' or 3' UMIs and keeping the sequence that has the highest prevalence.
Installation
pip install Chimera_Buster
Usage
Chimera_Buster [options] input_folder_name output_file_prefix
positional arguments:
| Arguement | Function |
|---|---|
| input_folder_name | Designates MrHAMER folder to be filtered. This is required. |
| output_file_prefix | Designates output file prefix. This is required. |
options:
| Arguement | Function |
|---|---|
| -h, --help | show this help message and exit |
| -m int, --mismatch int | Designates the maximum number of mismatched/indel bases allowed. Default is 1. |
License
MIT - Copyright (c) 2024 Jessica Lauren Albert
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