ADAM_2.12: Core 1.0.1 API < Back
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# Packages

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-  package org
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-  package bdgenomics
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-  package adam
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    bdgenomics
-  package util
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    adam
- ADAMShell
- AttributeUtils
- FileExtensions
- GenomeFileReader
- IndexedFastaFile
- ParquetFileTraversable
- ParquetLogger
- PhredUtils
- ReferenceFile
- ReferenceMap
- ReferenceMapSerializer
- SequenceDictionaryReader
- TextRddWriter
- TwoBitFile
- TwoBitFileSerializer

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org.bdgenomics.adam.util

# FileExtensions 

###

#### object FileExtensions

Match path names to file extensions.

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1.  final def !=(arg0: Any): Boolean
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9.  def hashCode(): Int
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10.  def is2BitExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a 2bit format file extension.

11.  def isBamExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a BAM/CRAM/SAM format file extension.

12.  def isBedExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a BED6/12 format file extension.

13.  def isDictExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches an HTSJDK sequence dictionary (.dict) extension.

14.  def isFastaExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a FASTA format file extension.

15.  def isFastqExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a FASTQ format file extension.

16.  def isGenomeExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a Bedtools genome file (.genome) extension.

17.  def isGff3Ext(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a GFF3 format file extension.

18.  def isGtfExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a GFF2/GTF format file extension.

19.  def isGzip(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a GZIP format file extension.

20.  final def isInstanceOf[T0]: Boolean
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21.  def isInterleavedFastqExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches an interleaved FASTQ format file extension.

22.  def isIntervalListExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches an IntervalList format file extension.

23.  def isNarrowPeakExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a NarrowPeak format file extension.

24.  def isTextExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a text file (.txt) extension.

25.  def isVcfExt(pathName: String): Boolean

    pathName

      The path name to match.

    returns

      Returns true if the path name matches a VCF format file extension.

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