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src/main/scala/com/fulcrumgenomics/umi
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lines changed Original file line number Diff line number Diff line change @@ -28,8 +28,11 @@ package com.fulcrumgenomics.umi
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* Object that encapsulates the various consensus related tags that are added to consensus reads
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* at both the per-read and per-base level.
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*
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- * Currently only contains tags for single-strand consensus reads, but with a view to using the following
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- * names for consistency if/when we add duplex calling:
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+ * Contains tags for both single-strand and duplex consensus reads. The first letter in the tag is `c` if
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+ * it relates to the final consensus read, `a` if it relates to the top-strand of a duplex consensus read,
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+ * and `b` if it relates to the bottom-strand of a duplex consensus read. The second letter in the tag is
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+ * lower case if it is per-base, upper case if it is per-read.
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+ *
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* Value AB BA Final
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* --------------------- -- -- -----
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* per-read-depth aD bD cD
@@ -39,7 +42,6 @@ package com.fulcrumgenomics.umi
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* per-base-error-count ae be ce
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* per-base-bases ac bc bases
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* per-base-quals aq bq quals
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- * The second letter in the tag is lower case if it is per-base, upper case if it is per-read.
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*/
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object ConsensusTags {
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/** The default field in which to look for UMI sequences and qualities. */
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