seqtk
Fast and lightweight tool for processing sequences in the FASTA or FASTQ format
Install
- All systems
-
curl cmd.cat/seqtk.sh
- Debian
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apt-get install seqtk - Ubuntu
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apt-get install seqtk - Kali Linux
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apt-get install seqtk - Windows (WSL2)
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sudo apt-get updatesudo apt-get install seqtk - OS X
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brew install seqtk - Raspbian
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apt-get install seqtk - Dockerfile
- dockerfile.run/seqtk
seqtk
Fast and lightweight tool for processing sequences in the FASTA or FASTQ format
Currently, seqtk supports quality based trimming with the phred algorithm, converting fastq to fasta, reverse complementing sequences, extracting or masking subsequences in regions given in a BED/name list file, and more. It contains a subsampling module to sample exactly n sequences or a fraction of sequences. Seqtk supports both fasta and fastq input files, which can be optionally gzip compressed.