There seems to be a bug merging sam files when using splitting and BWA. The merge cats the files together and thus multiple headers are distributed through the file. Does anyone have plans to add a merge method to the SAM datatype class?

Thanks,

Ilya

Ilya Chorny Ph.D.

Bioinformatics Scientist I

Illumina, Inc.

9885 Towne Centre Drive

San Diego, CA 92121

Work: 858.202.4582

Email: ichorny@illumina.com

Website: www.illumina.com