You could look at the chimera package. Also might try the GAlignmentsList class where each list element could hold copies of the read on different chromosomes. As an fyi the GAlignmentPairs class can now hold pairs from different chromosomes. Maybe not useful for the current problem but possibly in the future. Valerie On 11/02/2016 10:00 PM, Dario Strbenac [bioc] wrote: > Activity on a post you are following on support.bioconductor.org > <https: support.bioconductor.org=""> > > User Dario Strbenac <https: support.bioconductor.org="" u="" 5916=""/> wrote > Question: Class for Storing Chimeric Reads > <https: support.bioconductor.org="" p="" 88999=""/>: > > Is there any class that allows for the storing of chimeric reads? I > had a look at the reference manual of GenomicAlignments and the class > GAlignments can store only 1 chromosome per read. > > ------------------------------------------------------------------------ > > Post tags: GenomicAlignments, chimeric > > You may reply via email or visit > Class for Storing Chimeric Reads > This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.