FastqChunk (net.maizegenetics:tassel 5.2.49 API)

Constructors
Constructor and Description
`FastqChunk(Read[] reads)`
`FastqChunk(String fastqFileS, ReadUtils.ReadFormat format)` Constructor to read in whole Fastq, fastq file should be small for test
`FastqChunk(String fastqFileS, ReadUtils.ReadFormat format, int startIndex, int readNum)` Constructor, sample Fastq file, ignore those bad sequence at the beginning

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`int`	`getPhredScale()` Return phred score scale of the fastq, 33 or 64
`Read`	`getRead(int index)` Return Fastq read
`int`	`getReadNum()` Return number of Fastq read
`void`	`writeFasta(String outfileS)`
`void`	`writeFastq(String outputFileS, ReadUtils.ReadFormat format)` Write Fastq file

public FastqChunk(String fastqFileS,
                  ReadUtils.ReadFormat format,
                  int startIndex,
                  int readNum)

Constructor, sample Fastq file, ignore those bad sequence at the beginning

public void writeFastq(String outputFileS,
                       ReadUtils.ReadFormat format)

Write Fastq file

public void writeFasta(String outfileS)

Class FastqChunk