object FastqSource

Provides factory methods for creating a FastqSource from multiple types.

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  1. final def !=(arg0: Any): Boolean
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  2. final def ##(): Int
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  3. final def ==(arg0: Any): Boolean
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  4. def apply(path: commons.CommonsDef.PathToFastq): FastqSource

    Creates a new fastq source from a Path.

  5. def apply(file: File): FastqSource

    Creates a new fastq source from a File.

  6. def apply(source: Source): FastqSource

    Creates a new fastq source from a source.

  7. def apply(stream: InputStream): FastqSource

    Creates a new fastq source from an input stream.

  8. def apply(lines: Iterator[String]): FastqSource

    Creates a new fastq source from an iterator of lines.

  9. def apply(lines: Seq[String]): FastqSource

    Creates a new fastq source from a sequence of lines.

  10. final def asInstanceOf[T0]: T0
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  11. def clone(): AnyRef
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  12. final def eq(arg0: AnyRef): Boolean
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  13. def equals(arg0: Any): Boolean
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  14. def finalize(): Unit
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  15. final def getClass(): Class[_]
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  16. def hashCode(): Int
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  17. final def isInstanceOf[T0]: Boolean
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  18. final def ne(arg0: AnyRef): Boolean
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  19. final def notify(): Unit
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  20. final def notifyAll(): Unit
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  21. final def synchronized[T0](arg0: ⇒ T0): T0
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  22. def toString(): String
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  23. final def wait(): Unit
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  24. final def wait(arg0: Long, arg1: Int): Unit
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  25. final def wait(arg0: Long): Unit
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  26. def zipped(sources: Seq[FastqSource]): Iterator[Seq[FastqRecord]]

    Returns an iterator over multiple fastq files that ensures:

    Returns an iterator over multiple fastq files that ensures:

    1. Either all sources or no sources have more records 2. That the next records from each of the sources have the same read name
    sources

    a Seq of one or more FastqSource objects

    returns

    an Iterator that returns a Seq of FastqRecord, one per source

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