Sentence examples for by the path encoding from inspiring English sources
Finally, the remainder of each read (called the read tail) is encoded using an adaptive arithmetic coding scheme (Section 2.4) inspired by the path encoding problem (Section 2.2).
While smarter encoding schemes may reduce the size of these parts of the path encoded file [for example by performing a bit-level Burrows-Wheeler transformation (Burrows and Wheeler, 1994) of the bit vector], they do not represent a large fraction of the output and so improvements to them will likely have a small effect.
Another important direction for future work is to reduce the time and memory requirements of the implementation of path encoding.
Path encoding the entire dataset here takes 2.45 h, including all read preprocessing.
The exact path encoded in the replay may be decoded from the locations showing the highest a posteriori probability.
When compared against a recent reference-based encoding scheme, fastqz (Bonfield and Mahoney, 2013), path encoding fares well, consistently producing smaller files than the mapping approach taken by fastqz.
Under the BFP scheme, each node in the packet path encodes its ID into an array through the BF and then appends the array to the passing by packet.
Path encoding with k = 16 is able to reduce these files to 12 42% of the size that would be achieved if the file was naïvely encoded by representing each base with 2 bits (Table 1).
We focus initially on the path length encoded by spike sequences, which we define as the length of trajectory represented by the sequence of spikes within a single theta cycle.
This shows that the non-mapping-based reference scheme implemented by path encoding is both more effective and more robust than mapping-based schemes, which require good matches along a read to benefit from the reference and which also spend a lot of their encoding recording the edits between the reference and the mapped read.
Thus, the all-shortest path encoding is a subset of the paths contained in the DFS fingerprint.
