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  • package root
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  • package com
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  • package fulcrumgenomics
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    com
  • package umi
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    fulcrumgenomics
  • object ConsensusTags

    Object that encapsulates the various consensus related tags that are added to consensus reads at both the per-read and per-base level.

    Object that encapsulates the various consensus related tags that are added to consensus reads at both the per-read and per-base level.

    Currently only contains tags for single-strand consensus reads, but with a view to using the following names for consistency if/when we add duplex calling: Value AB BA Final --------------------- -- -- ----- per-read-depth aD bD cD per-read-min-depth aM bM cM per-read-error-rate aE bE cE per-base-depth ad bd cd per-base-error-count ae be ce per-base-bases ac bc bases per-base-quals aq bq quals The second letter in the tag is lower case if it is per-base, upper case if it is per-read.

    Definition Classes
    umi
  • PerBase
  • PerRead

object PerRead

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  4. val AbMinRawReadCount: String
  5. val AbRawReadCount: String
  6. val AbRawReadErrorRate: String
  7. val AllPerReadTags: Seq[String]

    The set of all per-read tags.

  8. val BaMinRawReadCount: String
  9. val BaRawReadCount: String
  10. val BaRawReadErrorRate: String
  11. val MinRawReadCount: String

    The minimum number of raw reads contributing to a consensus call anywhere in the read.

  12. val RawReadCount: String

    The number of raw reads that contributed to the consensus.

    The number of raw reads that contributed to the consensus. I.e. the maximum of the per-base raw-read counts.

  13. val RawReadErrorRate: String

    The number of bases in the raw reads that contributed to the consensus but disagreed with the consensus call.

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