Bulk antibody sequence preprocessing, annotaion with abstar, upload to MongoDB and S3
Project description
Antibody NGS Pipeline
Bulk antibody sequence preprocessing, annotation with abstar, upload to MongoDB and S3
install
pip install antibody-ngs-pipeline
use
To run antibody_ngs_pipeline:
antibody_ngs_pipeline
To run antibody_ngs_pipeline with FASTQC report on raw data:
antibody_ngs_pipeline -f
To run antibody_ngs_pipeline with adapter trimming by CutAdapt:
antibody_ngs_pipeline -t <path-to-adapters.fasta>
To run antibody_ngs_pipeline with adapter trimming by CutAdapt
and FASTQC report on both raw data and adapter trimmed data:
antibody_ngs_pipeline -f -t <path-to-adapters.fasta>
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