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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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antibody_ngs_pipeline-1.0.0.dev0.tar.gz (5.4 kB view hashes)

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