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README
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README
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A tool to process DNA Sequence files produced by Sequencers like the Roche/454 Titanium FLX.
The settings are configurable via a XML file.
Possible operations:
- load FASTA+QUAL files
- load files containing MID and Primer sequences for sorting
- allow "fuzzy" matching of MIDs and Primers with user-defined number of allowed mismatches
- filter
- min. Sequence length
- max. Number of Ns
- average Quality
- after-sort:
- single MID
- single Primer
- trimming:
- quality
- trim off MID and Primer
- fixed points
- at motif
- output
- all in a single file, or files per MID, Primer, or MID-Primer combination
- compression as zip, tar.gz and tar.bz
- other things that might come up…