public class SRAUtils
extends java.lang.Object
Modifier and Type | Field and Description |
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static int |
REFERENCE_ALIGNMENT
References are stored in SRA table in chunks of 5k bases per row, while last chunk of a reference is less or
equal than 5k bases in size (even if the next reference follows).
|
Constructor and Description |
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SRAUtils() |
Modifier and Type | Method and Description |
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static long |
getNumberOfReads(ngs.ReadCollection run)
Is used to build RecordRangeInfo
|
static java.util.List<java.lang.Long> |
getReferencesLengthsAligned(ngs.ReadCollection run)
Loads reference lengths from a read collection.
|
public static final int REFERENCE_ALIGNMENT
public static long getNumberOfReads(ngs.ReadCollection run) throws ngs.ErrorMsg
run
- open read collectionngs.ErrorMsg
public static java.util.List<java.lang.Long> getReferencesLengthsAligned(ngs.ReadCollection run) throws ngs.ErrorMsg
run
- single opened read collectionngs.ErrorMsg