PairSeq.py
toolkit for processing B and T cell sequences
Install
- All systems
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curl cmd.cat/PairSeq.py.sh
- Debian
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apt-get install python3-presto - Ubuntu
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apt-get install python3-presto - Kali Linux
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apt-get install python3-presto - Windows (WSL2)
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sudo apt-get updatesudo apt-get install python3-presto - Dockerfile
- dockerfile.run/PairSeq.py
python3-presto
toolkit for processing B and T cell sequences
pRESTO is a toolkit for processing raw reads from high-throughput sequencing of B cell and T cell repertoires. Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of lymphocyte repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. The REpertoire Sequencing TOolkit (pRESTO) is composed of a suite of utilities to handle all stages of sequence processing prior to germline segment assignment. pRESTO is designed to handle either single reads or paired-end reads. It includes features for quality control, primer masking, annotation of reads with sequence embedded barcodes, generation of unique molecular identifier (UMI) consensus sequences, assembly of paired-end reads and identification of duplicate sequences. Numerous options for sequence sorting, sampling and conversion operations are also included.