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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 | ## Features & quick facts
- Ray is a high-performance peer-to-peer software.
- http://dskernel.blogspot.com/2011/07/understand-main-loop-of-message-passing.html
- Ray can be utilised as a k-mer counter.
- Ray builds a k-mer graph (subgraph of a full de Bruijn graph).
- Ray finds paths in this graph.
- Ray is implemented in C++, version ISO/IEC 14882:1998.
- Ray utilises the message-passing interface (MPI), version 2.2.
- Ray supports various network interconnects, thanks to the message-passing interface (MessagesHandler).
- Ray is cloud-ready thanks to the message-passing interface.
- http://aws.amazon.com/ec2/hpc-applications/
- Ray utilises distributed sparse hash tables with double hashing (MyHashTable).
- Ray utilises smart pointers.
- Ray does garbage collection using real-time memory defragmentation & compaction (DefragmentationGroup).
- Ray utilises a Bloom filter to avoid storing most of the erroneous k-mers in memory.
- Ray utilises virtual communication (VirtualCommunicator).
- http://dskernel.blogspot.com/2011/01/virtual-communicator.html
- http://dskernel.blogspot.com/2011/06/more-on-virtual-communication-with.html
- Ray supports substitution DNA sequencing errors (Illumina).
- Ray supports indels DNA sequencing errors (Pacific Biosciences, 454). <b>In development</b>
- Ray supports paired reads to traverse repeats.
- Ray outputs scaffolds (+ many other useful files).
- Ray is open source with the GNU General Public License.
- Ray is a single executable called Ray (Ray.exe on Microsoft Windows).
- Ray is easy to install and easy to use.
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