cutadapt
Clean biological sequences from high-throughput sequencing reads
Install
- All systems
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curl cmd.cat/cutadapt.sh
- Debian
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apt-get install cutadapt - Ubuntu
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apt-get install cutadapt - Kali Linux
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apt-get install cutadapt - Windows (WSL2)
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sudo apt-get updatesudo apt-get install cutadapt - Raspbian
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apt-get install cutadapt - Dockerfile
- dockerfile.run/cutadapt
cutadapt
Clean biological sequences from high-throughput sequencing reads
Cutadapt helps with biological sequence clean tasks by finding the adapter or primer sequences in an error-tolerant way. It can also modify and filter reads in various ways. Adapter sequences can contain IUPAC wildcard characters. Also, paired-end reads and even colorspace data is supported. If you want, you can also just demultiplex your input data, without removing adapter sequences at all. This package contains the user interface.
python-cutadapt
Clean biological sequences from high-throughput sequencing reads (Python 2)
Cutadapt helps with biological sequence clean tasks by finding the adapter or primer sequences in an error-tolerant way. It can also modify and filter reads in various ways. Adapter sequences can contain IUPAC wildcard characters. Also, paired-end reads and even colorspace data is supported. If you want, you can also just demultiplex your input data, without removing adapter sequences at all. This package contains the Python 2 module.