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This release adds an additional parameter --assign_ambiguous_alignements_to_first_allele. For ambiguous alignments, setting this flag will force them to be assigned to the first (as provided by the references -a first and then -e second) amplicon. Thus, no reads will be discarded as 'ambiguous' and all reads will be counted once in the analysis.
In addition, batch summaries are produced for amplicons present in only one sample.
This discussion was created from the release Mutant Maricopa.
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This release adds an additional parameter
--assign_ambiguous_alignements_to_first_allele
. For ambiguous alignments, setting this flag will force them to be assigned to the first (as provided by the references -a first and then -e second) amplicon. Thus, no reads will be discarded as 'ambiguous' and all reads will be counted once in the analysis.In addition, batch summaries are produced for amplicons present in only one sample.
This discussion was created from the release Mutant Maricopa.
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