Introduction

The reference CRAM file format implementation is in Java. We present 'Scramble': a new C implementation of SAM, BAM and CRAM file I/O.The C implementation of for CRAM is 1.5-1.7× slower than BAM at decoding but 1.8-2.6× faster at encoding. We see file size savings of 34-55%.Source code is available at http://sourceforge.net/projects/staden/files/io_lib/ under the BSD software licence.

Publications

  1. The Scramble conversion tool.
    Cite this
    Bonfield JK, 2014-10-01 - Bioinformatics (Oxford, England)

Credits

  1. James K Bonfield
    Investigator

    DNA Pipelines, Wellcome Trust Sanger Institute

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Summary
AccessionBT004865
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesC, C++
User InterfaceTerminal Command Line
Download Count0
Submitted ByJames K Bonfield