PerformanceTestingofFM-indexAlgorithmandParallelization ZHANGGuangzhi 1 ,ZHANGYunquan 1,2 ,LIWeihua 3 ,LIYucheng 1,2 (1.LabofParallelComputing,InstituteofSoftware,ChineseAcademyofSciences,Beijing100080; 2.StateKeyLabofComputerScience,InstituteofSoftware,ChineseAcademyofSciences,Beijing100080; 3.ComputerCenter...
FM-index is the fastest full text search algorithm using a compressed index file. This is FM-index for JSX/JS/AMD/Common.js.. Latest version: 0.3.0, last published: 11 years ago. Start using fm-index.jsx in your project by running `npm i fm-index.jsx`. T
Algorithm FM Search(P[1, m],T bwt [1, n]) (1) c = P[m]; i = m; (2) sp = CT [c] +1; ep = CT [c +1]; (3) while (sp ≤ ep) and (i ≥ 2) do (4) c = P[i −1]; (5) sp = CT [c] +Occ(T bwt ...
Due to the importance of the matching problem, dozens of algorithms and several data structures have been developed since the seventies. Some of the algorithms are based on finite automata, for instance, the Aho-Corasick algorithm or the Knuth-Morris-Pratt algorithm. Other methods preprocess the t...
The "Sine" Modulator signal is obtained in the FPGA with a Cordic algorithm. There is a scaling error which reduces the modulator amplitude to 95% of the desired value. This affects the Modulation Index. We will fix the error in the next WafeForms release. Until then, here is the work...
(e.g.,the Smith-Waterman algorithm).Compared with the extension phase,the seeding phase is more critical and essential.However,the seeding phase is bounded by memory,i.e.,fine-grained random memory access and limited parallelism on conventional system.In this paper,we argue that the processing-...
Ropebwt3introduces a faster algorithm for long sequences and retains the same ropebwt2 algorithm as an alternative (invoked withropebwt3 build -2). It also has additional functionality. Introduction RopeBWT2 is an tool for constructing the FM-index for a collection of DNA sequences. It works...
Burrows-Wheeler Transform and FM-index in golang Install This package is "go-gettable", just: go get -u github.com/shenwei356/bwt Licence Copyright (c) 2015-2021, Wei Shen (shenwei356@gmail.com) MIT License Other resources String algorithm visualizations Linear-time suffix array construction...
Lempel A universal algorithm for sequential data compression IEEE Trans. Inform. Theory, 23 (3) (1977), pp. 337-343 View in ScopusGoogle Scholar Cited by (15) Approximate pattern matching on elastic-degenerate text 2020, Theoretical Computer Science Citation Excerpt : A tool EDSO (available ...
RIP is the canonical example of a routing protocol built on the ___25___ algorithm. Routing protocols in intemetworks differ slightly from the idealized graph model. In an internetwork, the goal of the routers to forward packets to various ___26___. B. Routers running RIP send their ...