Method Detail

• read

   final BigBedFile read(Path path, Function0<Unit> cancelledChecker)

• read

   final BigBedFile read(String src, Integer prefetch, Function0<Unit> cancelledChecker, Function2<String, ByteOrder, RomBufferFactory> factoryProvider)

• write

  @JvmOverloads() final Unit write(Iterable<BedEntry> bedEntries, Iterable<Pair<String, Integer>> chromSizes, Path outputPath, Integer itemsPerSlot, Integer zoomLevelCount, CompressionType compression, ByteOrder order, Function0<Unit> cancelledChecker)

  Creates a BigBED file from given entries.

  Parameters:

  bedEntries - entries sorted by chromosome and start offset.

  chromSizes - chromosome names and sizes, e.g.

  outputPath - BigBED file path.

  itemsPerSlot - number of items to store in a single R+ tree index node.

  zoomLevelCount - number of zoom levels to pre-compute.

  compression - method for data sections, see CompressionType.

  order - byte order used, see java.nio.ByteOrder.

  cancelledChecker - Throw cancelled exception to abort operation @@throws IOException if any of the read or write operations failed.