Scramble

Scramble is a DNA sequencing file format conversion tool included as part of the Staden io_lib package.

Scramble is a DNA sequencing file format conversion tool included as part of the Staden io_lib package.

Scramble can convert between SAM, BAM and CRAM file formats. It is a part of the Staden io_lib package.

In this regard it shares a similar goal to the Samtools view sub-command, but historically was more performant. (There is no longer any considerable difference between the two.) Now Scramble is still supported, but is also a test bed for more experimental CRAM features, such as the CRAM 4.0 version.

A few related tools in io_lib are scram_flagstat, scram_merge, scram_pileup and cram_index.

Downloads

Scramble is part of the Staden io_lib package and is available from https://github.com/jkbonfield/io_lib.

Further information

To report any problems, please use the github issue tracker.

Io_lib (and hence Scramble) uses a mixture of BSD and MIT OpenSource licenses.


Sanger Institute Contributors

Photo of James Bonfield

James Bonfield

Principal Software Developer