fastatool1
Provides a set of tools useful when working with fasta files.
Overview
This program is part of the MIRA assembler package. Fastatool provides a set of tools useful when working with FASTA trace files.
Please check out the documentation below for more detailed information.
Synopsis"
fastatool <toolname> <tool parameters>
Options
- clip
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Clips bases on the left and right of a FASTA sequence, writes result to STDOUT.
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Usage:
- clipFASTA -l leftclip -r rightclip fastainfile
- sanitize
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Deletes sequences with non-IUPAC bases or empty sequences from a FASTA file, writes the 'surviving' sequences to a new file. If a quality file is given, a cleaned version of that is also written. The sequences in the quality files (if given) MUST be in the same order than in the fasta file.
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Usage:
- sanitizeFASTA fastainfile fastaoutfile [fastaqualin fastaqualoutfile]