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blt fastx-derep(1) General Commands Manual blt fastx-derep(1) SYNOPSIS blt fastx-derep < file.fastq > file-uniq.fastq DESCRIPTION blt fastx-derep remove replicates from a FASTA or FASTQ file by hashing each sequence and printing only records for which the hash has not previ- ously been encountered. If memory is a limiting factor for your dereplication jobs, see fastq- derep.sh(3), a shell script utilizing the Unix sort command, which automat- ically breaks large files into chunks so they can be sorted within avail- able memory. fastq-derep.sh is much slower, but may be able to complete tasks where other methods run out of memory. EXAMPLES blt fastx-derep < file.fasta > file-uniq.fasta xzcat file.fasta.xz | blt fastx-derep > file-uniq.fasta xzcat file.fastq.xz | blt fastx-derep > file-uniq.fastq SEE ALSO blt-fastx2tsv(1), blt-fastq-derep.sh(1) AUTHOR J. Bacon blt fastx-derep(1)
SYNOPSIS | DESCRIPTION | EXAMPLES | SEE ALSO | AUTHOR
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