
bnlearn
 Referenced in 68 articles
[sw08265]
 structure learning algorithms for both discrete and Gaussian networks, along with many score functions...

GRAPPA
 Referenced in 12 articles
[sw17255]
 because the running time of its scoring algorithm grows exponentially with the number of genes ... compute a tight lower bound on the score of a given tree, using...

brglm2
 Referenced in 10 articles
[sw19510]
 takes place via a quasi Fisher scoring algorithm, and S3 methods for the construction...

PROC LOGISTIC
 Referenced in 10 articles
[sw12078]
 carried out with either the Fisher scoring algorithm or the NewtonRaphson algorithm...

TMalign
 Referenced in 14 articles
[sw22248]
 align: a protein structure alignment algorithm based on TMscore. We have developed TMalign ... combines the TMscore rotation matrix and Dynamic Programming (DP). The algorithm is ∼4 times ... distinct folds are found when a TMscore threshold of 0.5 is used. We also...

DASSOC
 Referenced in 8 articles
[sw27806]
 DASSOC program uses the modified NewtonRaphson algorithm for association models described in the Haberman ... Currently available procedures based on the scoring algorithm for constrained maximum likelihood are relatively unreliable...

PSIBLAST
 Referenced in 233 articles
[sw17324]
 protein comparisons, a variety of definitional, algorithmic and statistical refinements described here permits the execution ... produced by BLAST into a positionspecific score matrix, and searching the database using this...

CCASat
 Referenced in 12 articles
[sw12924]
 strategy results in a simple local search algorithm for SAT called Swcc, which shows promising ... forbids flipping those variables even with great scores, if they do not satisfy ... heuristic leads to an improved algorithm called Swcca, which exhibits stateoftheart performance ... flipping have the same score. The resulting algorithm CCAsubscore is very efficient for solving random...

MUSCLE
 Referenced in 73 articles
[sw13193]
 alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting ... profile function we call the log‐expectation score, and refinement using tree‐dependent restricted partitioning...

PhyME
 Referenced in 9 articles
[sw35645]
 other species. Results: We propose an algorithm that integrates two important aspects of a motif ... crossspecies conservation – into one probabilistic score. The algorithm allows the input orthologous sequences...

mcglm
 Referenced in 5 articles
[sw23203]
 fitted using an efficient Newton scoring algorithm based on quasilikelihood and Pearson estimating functions...

Sentilo
 Referenced in 3 articles
[sw26847]
 Anyone can plug its own opinion scoring algorithm to compute scores of opinion expressing words ... come up with a combined scoring algorithm for each identified entities and the overall sentence...

CatBoost
 Referenced in 4 articles
[sw31560]
 algorithm and a CPU implementation of scoring algorithm, which are significantly faster than other gradient...

SATzilla
 Referenced in 93 articles
[sw06281]
 automated approach for constructing perinstance algorithm portfolios for SAT that use socalled empirical ... mean runtime, percent of instances solved, or score in a competition). The excellent performance...

GraphBase
 Referenced in 133 articles
[sw01555]
 data useful for testing and comparing combinatorial algorithms. The programs generate a large number ... statistics of the US economy, college football scores, computational logic circuits, the Mona Lisa...

SCGLR
 Referenced in 4 articles
[sw12061]
 Component Generalized Linear Regression. The Fisher Scoring Algorithm is extended so as to combine Partial...

GASTS
 Referenced in 5 articles
[sw29624]
 GASTS: parsimony scoring under rearrangements. The accumulation of wholegenome data has renewed interest ... cancer research all require models and algorithms to elucidate the mechanisms, history, and consequences ... main contribution is GASTS, an algorithm for scoring a fixed phylogenetic tree: given a tree ... algorithm also returns much better scores. In simulations, our tree scores stay within...

IsoRankN
 Referenced in 11 articles
[sw08325]
 induced graph of pairwise alignment scores. IsoRankN outperforms existing algorithms for global network alignment...

SEGID
 Referenced in 9 articles
[sw35743]
 number is the alignment score of a column. Three algorithms are used to identify regions...

CLUSTAL
 Referenced in 18 articles
[sw12750]
 pairwise sequence similarity scores, obtained using a fast pairwise alignment algorithm. Then the multiple alignment...