
Voom
 Referenced in 17 articles
[sw14009]
 Voom: precision weights unlock linear model analysis tools for RNAseq read counts. New normal ... linear modeling strategies are presented for analyzing read counts from RNAseq experiments. The voom ... variance relationship of the logcounts, generates a precision weight for each observation and enters ... voom performs as well or better than countbased RNAseq methods even when...

spdep
 Referenced in 33 articles
[sw04578]
 schemes, statistics and models , A collection of functions to create spatial weights matrix objects from ... Assuncao/Reis Index, Getis/Ord G and multicoloured join count statistics, local Moran’s I and Getis/Ord ... error models, impact measures for lag models, weighted and unweighted SAR and CAR spatial regression...

PISA
 Referenced in 1 article
[sw20692]
 complete, establishing its equivalence with the weighted model counting problems. We present two approaches...

SNVMix
 Referenced in 4 articles
[sw29569]
 first models allelic counts as observations and infers SNVs and model parameters using an expectation ... second models nucleotide and mapping qualities of the reads by probabilistically weighting the contribution...

SimSeq
 Referenced in 3 articles
[sw34306]
 have been simulated according to the assumed model. This testing strategy can result ... data. The vector of read counts simulated for a given experimental unit has a joint ... provide a vector of weights to control the distribution of effect sizes. The algorithm requires...

Whittle Surrogate
 Referenced in 1 article
[sw22532]
 create a Markov model from data one counts the occurrence of symbols and their transitions ... transition probabilities in matrix form. Given the model one may wish to compute the likelihood ... each step a symbol is chosen randomly, weighted by the number of remaining sequences given...

PaxDb
 Referenced in 1 article
[sw29371]
 data, reprocessed using a standardized spectral counting pipeline. By aggregating and averaging over ... proteinnetwork information, and demonstrate that our weighted integration exhibits more consistency than the data ... covers 85,000 proteins in 12 model organisms. All values can be seamlessly compared across...

ATLAS
 Referenced in 197 articles
[sw00056]
 This paper describes the Automatically Tuned Linear Algebra...

cdd
 Referenced in 112 articles
[sw00114]
 The program cdd+ (cdd, respectively) is a C...

CoCoA
 Referenced in 634 articles
[sw00143]
 CoCoA is a system for Computations in Commutative...

compositions
 Referenced in 23 articles
[sw00150]
 R package compositions:Compositional data analysis with R...

Coq
 Referenced in 1818 articles
[sw00161]
 Coq is a formal proof management system. It...

GAP
 Referenced in 2948 articles
[sw00320]
 GAP is a system for computational discrete algebra...

GAUSS
 Referenced in 119 articles
[sw00322]
 The GAUSS Mathematical and Statistical System is a...

gmp
 Referenced in 272 articles
[sw00363]
 GMP is a free library for arbitrary precision...

Isabelle
 Referenced in 617 articles
[sw00454]
 Isabelle is a generic proof assistant. It allows...

LAPACK
 Referenced in 1647 articles
[sw00503]
 LAPACK is written in Fortran 90 and provides...

LSQR
 Referenced in 368 articles
[sw00530]
 Algorithm 583: LSQR: Sparse Linear Equations and Least...

Macaulay2
 Referenced in 1721 articles
[sw00537]
 Macaulay2 is a software system devoted to supporting...