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Found 192 Software Packages (Results 1–100)

edgeR

Software Authors:   Mark D. Robinson; Davis J. McCarthy; Gordon K. Smyth
Referenced in: 49 Publications (2011–2022)
Related Software: Bioconductor; R; DEseq; Voom; BaySeq; TopHat; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Numerical analysis (65-XX)

COSA

Software Authors:   Friedman, Jerome H.; Meulman, Jacqueline J.
Referenced in: 49 Publications (2003–2022)
Related Software: UCI-ml; sparcl; R; mclust; clusfind; Silhouettes; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

ArrayExpress

Software Authors:   EMBL-EBI; Parkinson, Helen E.; Kapushesky, Misha; Shojatalab, Mohammadreza; Abeygunawardena, Niran; Coulson, R.; Farne, Anna; Holloway, Ele; Kolesnykov, N.; Lilja, P.; Lukk, M.; Mani, R.; Rayner, Tim; Sharma, Anjan; William, E.; Sarkans, Ugis; Brazma, Alvis
Referenced in: 13 Publications (2007–2019)
Related Software: Bioconductor; R; gcrma; KEGG; affy; TM4; …
Main Fields: Combinatorics (05-XX); Statistics (62-XX); Numerical analysis (65-XX)

Pse-in-One

Software Authors:   Liu, B.; Liu, F.; Wang, X.; Chen, J.; Fang, L.; Chou, K. -C.:
Referenced in: 41 Publications (2015–2019)
Related Software: iRSpot-PseDNC; PseKNC; iPro54-PseKNC; pLoc-mEuk; iRNA-PseColl; pLoc-mAnimal; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

SSS

Software Authors:   Hans, Chris; Dobra, Adrian; West, Mike
Referenced in: 39 Publications (2007–2022)
Related Software: EMVS; glmnet; BayesDA; EBayesThresh; glasso; R; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Numerical analysis (65-XX)

PatternHunter

Software Authors:   Ma, B., Tromp, J., Li, M.
Referenced in: 29 Publications (2004–2020)
Related Software: SHRiMP; BLAT; MUMMER; LAGAN; Soap; BLASTZ; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Statistics (62-XX)

PseKNC

Software Authors:   Chen, W.; Lei, T. -Y.; Jin, D. -C.; Lin, H.; Chou, K. -C.
Referenced in: 31 Publications (2015–2019)
Related Software: iRSpot-PseDNC; Pse-in-One; pLoc-mAnimal; iPTM-mLys; iNuc-PseKNC; pLoc-mPlant; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

LAGAN

Software Authors:   M. Brudno, C.B. Do, G.M. Cooper, M.F. Kim, E. Davydov, E.D. Green, A. Sidow, S. Batzoglou
Referenced in: 11 Publications (2005–2019)
Related Software: MUMMER; BLASTZ; PatternHunter; BLAT; MUSCLE; ClustalW; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Computer science (68-XX)

CellProfiler

Software Authors:   Anne E Carpenter, Thouis R Jones, Michael R Lamprecht, Colin Clarke, In Han Kang, Ola Friman, David A Guertin, Joo Han Chang, Robert A Lindquist, Jason Moffat, Polina Golland, David M Sabatini
Referenced in: 5 Publications (2018–2020)
Related Software: ImageJ; ImageJ2; Fiji; ImgLib2; scikit-image; ilastik; …
Main Fields: Algebraic topology (55-XX); Statistics (62-XX); Computer science (68-XX)

SPAdes

Software Authors:   Anton Bankevich, Sergey Nurk, Dmitry Antipov, Alexey A. Gurevich, Mikhail Dvorkin, Alexander S. Kulikov, Valery M. Lesin, Sergey I. Nikolenko, Son Pham, Andrey D. Prjibelski, Alexey V. Pyshkin, Alexander V. Sirotkin, Nikolay Vyahhi, Glenn Tesler, Max A. Alekseyev, Pavel A. Pevzner
Referenced in: 17 Publications (2015–2022)
Related Software: Velvet; IDBA-UD; IDBA; ABySS; GAGE; MEGAHIT; …
Main Fields: Combinatorics (05-XX); Statistics (62-XX); Computer science (68-XX)

pymatgen

Software Authors:   Ong, S. P.; Richards, W. D.; Jain, A.; Hautier, G.; Kocher, M.; Cholia, S.; Gunter, D.; Chevrier, V. L.; Persson, K. A.; Ceder, G.
Referenced in: 3 Publications (2017–2022)
Related Software: Python; ASE; Matplotlib; SciPy; Spglib; NumPy; …
Main Fields: Group theory and generalizations (20-XX); Convex and discrete geometry (52-XX); Manifolds and cell complexes (57-XX)

OrthoMCL

Software Authors:   Li, L., Stoeckert, C.J., Roos, D.
Referenced in: 8 Publications (2006–2020)
Related Software: MSOAR; BLAST; PSI-BLAST; eggNOG; Proteinortho; PHYLIP; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Statistics (62-XX)

Kalign

Software Authors:   T. Lassmann, O. Frings, E. Sonnhammer
Referenced in: 11 Publications (2011–2019)
Related Software: MUSCLE; ClustalW; T-coffee; MAFFT; ProbCons; Balibase; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)

ForceAtlas2

Software Authors:   Jacomy, M.; Venturini, T.; Heymann, S.; Bastian, M.
Referenced in: 12 Publications (2017–2022)
Related Software: Gephi; GitHub; Supracentrality; CHAMP; GenLouvain; UMAP; …
Main Fields: Combinatorics (05-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)

GenABEL

Software Authors:   Aulchenko, Y. S., Ripke, S., Isaacs, A.; van Duijn, C. M
Referenced in: 6 Publications (2013–2017)
Related Software: R; ProbABEL; PLINK; Bioconductor; MixMAP; Postgwas; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Numerical analysis (65-XX)

GeneMANIA

Software Authors:   Mostafavi, S., Ray, D., Warde-Farley, D., Grouios, C., Morris, Q.
Referenced in: 9 Publications (2012–2021)
Related Software: Cytoscape; STRING; BioGRID; SHOGUN; BLAST; PSI-BLAST; …
Main Fields: Combinatorics (05-XX); Statistics (62-XX); Computer science (68-XX)

TETRA

Software Authors:   Teeling H, Waldmann J, Lombardot T, Bauer M, Glöckner FO
Referenced in: 2 Publications (2011–2020)
Related Software: MEGAN; TACOA; BLAST; PSI-BLAST; DOTUR; Pfam; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

ABCtoolbox

Software Authors:   Daniel Wegmann, Christoph Leuenberger, Samuel Neuenschwander, Laurent Excoffier
Referenced in: 7 Publications (2012–2020)
Related Software: abctools; PopABC; abc; ABrox; DIYABC; msABC; …
Main Fields: Ordinary differential equations (34-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)

BEDTools

Software Authors:   Quinlan AR, Hall IM
Referenced in: 7 Publications (2012–2019)
Related Software: R; Soap; IGV; FastQC; Samtools; edgeR; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

MAMMOTH

Software Authors:   Ortiz, A.R.; Strauss, C.E.M.; Olmea, O.
Referenced in: 8 Publications (2008–2017)
Related Software: TM-align; BLAST; PSI-BLAST; DIAL; GenThreader; PHYLIP; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

GEOquery

Software Authors:   Sean D, Meltzer PS
Referenced in: 7 Publications (2016–2021)
Related Software: R; Bioconductor; shiny; WEKA; adaptMT; AdaPT; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

qvalue

Software Authors:   John D. Storey, Andrew J. Bass, Alan Dabney, David Robinson
Referenced in: 8 Publications (2008–2022)
Related Software: R; multtest; fdrtool; Phyloseq; Mutoss; structSSI; …
Main Fields: Harmonic analysis on Euclidean spaces (42-XX); Statistics (62-XX); Operations research, mathematical programming (90-XX)

PathBLAST

Software Authors:   Kelley, B. P., Yuan, B., Lewitter, F., Sharan, R., Stockwell, B. R., Ideker T
Referenced in: 6 Publications (2011–2015)
Related Software: KEGG; BLAST; PSI-BLAST; ClustalW; MAVisto; FANMOD; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Computer science (68-XX)

plsgenomics

Software Authors:   Boulesteix AL, Lambert-Lacroix S, Peyre J, Strimmer K
Referenced in: 8 Publications (2013–2022)
Related Software: R; mclust; glmnet; MASS (R); rrcov; ROBPCA; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

cmenet

Software Authors:   Simon Mak, C. F. Jeff Wu
Referenced in: 7 Publications (2018–2020)
Related Software: sparsenet; R; glmnet; CRAN; L0Learn; foba; …
Main Fields: Combinatorics (05-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)

varSelRF

Software Authors:   Ramon Diaz-Uriarte
Referenced in: 2 Publications (2009)
Related Software: GeneSrF; R; randomForest; Boruta; FSelector; ipred; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

FindPeaks

Software Authors:   Fejes AP, Robertson G, Bilenky M, et al.
Referenced in: 3 Publications (2012–2013)
Related Software: BayesPeak; KEGG; DEGseq; edgeR; R; TileMap; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

GlobPlot

Software Authors:   Rune Linding, Robert B. Russell, Victor Neduva and Toby J. Gibson
Referenced in: 4 Publications (2008–2019)
Related Software: IUPred; RONN; FoldIndex; FoldUnfold; DISOPRED; ELM; …
Main Fields: Mathematical logic and foundations (03-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

MSOAR

Software Authors:   Fu, Z., Chen, X., Vacic, V., Nan, P., Zhong, Y., Jiang, T.; Shi, G., Zhang, L.
Referenced in: 4 Publications (2013–2020)
Related Software: OrthoMCL; GASTS; MrBayes; BIONJ; PHYLIP; UniProt; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Computer science (68-XX)

Blast2GO

Software Authors:   Conesa, A., Götz, S., García-Gómez, J.M., Terol, J., Talón, M., Robles, M.
Referenced in: 2 Publications (2019–2020)
Related Software: DAVID; Pfam; KEGG; MODELLER; InterProScan; I-TASSER; …
Main Fields: General and overarching topics; collections (00-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

CloudBurst

Software Authors:   Michael C. Schatz
Referenced in: 2 Publications (2013–2018)
Related Software: Soap; MrsRF; MapReduce; BWA; ZOOM; Crossbow; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

Expression Profiler

Software Authors:   Jaak Vilo, Misha Kapushesky, Patrick Kemmeren, Ugis Sarkans, Alvis Brazma
Referenced in: 1 Publication (2003)
Related Software: Bioconductor; Taverna; R; Globus Toolkit; ASKALON; Matlab; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

iBAG

Software Authors:   Wang, W., Baladandayuthapani, V., Morris, J. S., Broom, B. M., Manyam, G. Do, K.-A.
Referenced in: 6 Publications (2015–2021)
Related Software: TCGA-assembler; PenPC; XMRF; glasso; GISTIC2.0; GTM; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

PLASQ

Software Authors:   Laframboise, Thomas; Harrington, David; Weir, Barbara A.
Referenced in: 5 Publications (2007–2011)
Related Software: CARAT; R; PICNIC; BRLMM; oligo; GenoSNP; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

ARIA

Software Authors:   Linge, J.P., Habeck, M., Rieping, W., Nilges, M.
Referenced in: 4 Publications (2013–2018)
Related Software: CNS; Xplor-NIH; CHARMM; CYANA; iBP; TM-align; …
Main Fields: Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

Circos

Software Authors:   Krzywinski, M., Schein, J., Birol, I., Connors, J., Gascoyne, R., Horsman, D., Jones, S.J., Marra, M.A.
Referenced in: 4 Publications (2018–2021)
Related Software: Vega; Polaris; Hackage; Seaborn; ggplot2; OGDF; …
Main Fields: Combinatorics (05-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

GASTS

Software Authors:   Xu, A., Moret, B.
Referenced in: 4 Publications (2013–2019)
Related Software: MSOAR; OrthoMCL; FastTree; GRAPPA; RAxML; Mauve; …
Main Fields: General and overarching topics; collections (00-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

GSPPCA

Software Authors:   Bouveyron, Charles; Latouche, Pierre; Mattei, Pierre-Alexandre
Referenced in: 5 Publications (2017–2020)
Related Software: msda; PMA; Bessel; penalizedLDA; PCANet; PRMLT; …
Main Fields: Statistics (62-XX)

IntelliGEN

Software Authors:   Kochut, Krys; Arnold, Jonathan; Sheth, Amit; Miller, John; Kraemer, Eileen; Arpinar, Budak; Cardoso, Jorge
Referenced in: 4 Publications (2003–2012)
Related Software: Woflan; JigCell; Virtual Cell; YSMP; MEG; STOCKS; …
Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

REDfly

Software Authors:   Halfon M, Gallo S, Bergman C
Referenced in: 2 Publications (2019–2020)
Related Software: R; expansion-network; MaBoSS; GitHub; Python; Ginsim; …
Main Fields: Biology and other natural sciences (92-XX)

XMRF

Software Authors:   Ying-Wooi Wan, Genevera I. Allen, Yulia Baker, Eunho Yang, Pradeep Ravikumar, Zhandong Liu
Referenced in: 4 Publications (2018–2021)
Related Software: glasso; huge; R; stringr; gtools; Python; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

BioGAP

Software Authors:   Attila Egry-Nagy; Andrew Francis; Volker Gebhardt
Referenced in: 4 Publications (2014–2019)
Related Software: Mauve; GAP; GitHub; VIZ; TikZ; Graphviz
Main Fields: Combinatorics (05-XX); Order, lattices, ordered algebraic structures (06-XX); Group theory and generalizations (20-XX)

CONFAC

Software Authors:   Suresh Karanam, Carlos S. Moreno
Referenced in: 1 Publication (2009)
Related Software: CGHMultiArray; AS 62; ArrayExpress; JASPAR; rVISTA; AS 159
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

DINGO

Software Authors:   Ha MJ, Baladandayuthapani V, Do K-A
Referenced in: 3 Publications (2019–2021)
Related Software: glasso; ARACNE; DEseq; GeNGe; SynTReN; GeneNetWeaver; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

GenePattern

Software Authors:   Michael Reich, Ted Liefeld, Joshua Gould, Jim Lerner, Pablo Tamayo, Jill P Mesirov
Referenced in: 1 Publication (2016)
Related Software: R; PlantTFDB; eggNOG; ELM; dbCAN; antiSMASH; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

LPMode

Software Authors:   Mukhopadhyay, Subhadeep
Referenced in: 4 Publications (2017–2022)
Related Software: R; TOHM; reldist; LPsmooth; Algorithm 457; bootstrap; …
Main Fields: Statistics (62-XX)

MetaSim

Software Authors:   Richter, D.C.; Ott, F.; Auch, A.F.; Schmid, R.; Huson, D.H.
Referenced in: 2 Publications (2017–2018)
Related Software: ONE; BLAST; PSI-BLAST; MEGAN; Pfam; MetaCluster; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

Q-SiteFinder

Software Authors:   Alasdair T. R. Laurie, Richard M. Jackson
Referenced in: 2 Publications (2014)
Related Software: LINCS; Gromacs; MrBayes; SETTLE; PyMOL; AutoDock Vina; …
Main Fields: Biology and other natural sciences (92-XX)

VirtualLeaf

Software Authors:   Merks, R., Guravage, M., Inzé, D., Beemster, G
Referenced in: 3 Publications (2015–2019)
Related Software: PhysiCell; CellSys; Microvessel Chaste; EmbryoMaker; CompuCell3D; Morpheus; …
Main Fields: Biology and other natural sciences (92-XX)

AFLOW-SYM

Software Authors:   Hicks, David; Oses, Corey; Gossett, Eric; Gomez, Geena; Taylor, Richard H.; Toher, Cormac; Mehl, Michael J.; Levy, Ohad; Curtarolo, Stefano
Referenced in: 3 Publications (2018–2020)
Related Software: Spglib; PersistenceImages; PLATON; Phonopy; AFLUX; AFLOW; …
Main Fields: Probability theory and stochastic processes (60-XX); Statistics (62-XX); Statistical mechanics, structure of matter (82-XX)

BayCount

Software Authors:   Xie, Fangzheng; Zhou, Mingyuan; Xu, Yanxun
Referenced in: 3 Publications (2018–2021)
Related Software: R; PyClone; THetA; PhyloWGS; PairClone; TreeClone; …
Main Fields: Statistics (62-XX)

CLARK

Software Authors:   Ounit, R.; Wanamaker, S.; Close, T.J.; Lonardi, S.
Referenced in: 3 Publications (2017–2022)
Related Software: MetaProb; SpEED; PatternHunter; SHRiMP; GTDB-Tk; CheckM; …
Main Fields: Biology and other natural sciences (92-XX)

CRYSTALP2

Software Authors:   Lukasz Kurgan, Ali A Razib, Sara Aghakhani, Scott Dick, Marcin Mizianty, Samad Jahandideh
Referenced in: 3 Publications (2011–2016)
Related Software: ParCrys; Cd-hit; NR-2L; RSARF; AFP-Pred; iLoc-Euk; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

gfpop

Software Authors:   Vincent Runge, Toby Dylan Hocking, Gaetano Romano, Fatemeh Afghah, Paul Fearnhead, Guillem Rigaill
Referenced in: 1 Publication (2020)
Related Software: R; PeakSegOptimal; wbs; PeakSegDisk; isotone; PeakSeg; …
Main Fields: Computer science (68-XX)

IGV

Software Authors:   Thorvaldsdóttir H, Robinson JT, Mesirov JP
Referenced in: 3 Publications (2016–2018)
Related Software: BEDTools; R; FastQC; Samtools; FIMO; BioMart; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

netgwas

Software Authors:   Pariya Behrouzi, Ernst C. Wit
Referenced in: 1 Publication (2019)
Related Software: Matrix; R; igraph; MASS (R); onemap; Rbgl; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

ParCrys

Software Authors:   Ian M. Overton, Gianandrea Padovani, Mark A. Girolami, Geoffrey J. Barton
Referenced in: 2 Publications (2012–2016)
Related Software: CRYSTALP2; NR-2L; RSARF; AFP-Pred; iLoc-Euk; iLoc-Plant; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

Profunc

Software Authors:   R. A. Laskowski, J. D. Watson, J. M. Thornton
Referenced in: 1 Publication (2015)
Related Software: I-TASSER; SW1PerS; UProC; PBEQ-Solver; DOMpro; darch; …
Main Fields: Biology and other natural sciences (92-XX)

Qxpak

Software Authors:   Miguel Pérez-Enciso; Ignacy Misztal
Referenced in: 1 Publication (2007)
Related Software: Eigenstrat; IMPUTE; ProbABEL; GenABEL; PLINK; QTL Cartographer; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX)

Rnaz

Software Authors:   Gruber AR, Findeiss S, Washietl S, Hofacker IL, Stadler PF
Referenced in: 2 Publications (2015–2017)
Related Software: Rfam; Bioconductor; R; ViennaRNA; TopHat; KEGG; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

sparsebn

Software Authors:   Bryon Aragam, Jiaying Gu, Qing Zhou
Referenced in: 2 Publications (2021–2022)
Related Software: bnlearn; R; TETRAD; lavaan; nnet; sparsenet; …
Main Fields: Statistics (62-XX); Computer science (68-XX)

SpectralNET

Software Authors:   Forman JJ1, Clemons PA, Schreiber SL, Haggarty SJ.
Referenced in: 2 Publications (2011)
Related Software: Graph Investigator; StOCNET; LAPACK; GeneRAGE; ProClust; BLAST; …
Main Fields: Combinatorics (05-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)

SplitMEM

Software Authors:   S. Marcus, H. Lee, M. C. Schatz
Referenced in: 3 Publications (2017–2022)
Related Software: tbwt; BWA; Rainbowfish; deBGA; vg; HISAT
Main Fields: Combinatorics (05-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

SRA

Software Authors:   National Center for Biotechnology Information, U.S. National Library of Medicine
Referenced in: 3 Publications (2011–2014)
Related Software: EDAseq; changepoint; edgeR; Bioconductor; R; CRAN
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

UCSC genome browser

Software Authors:   Zweig AS, Karolchik D, Kuhn RM et al
Referenced in: 3 Publications (2002–2017)
Related Software: MrBayes; BLASTZ; OXBench; PatternHunter; BLAT; T-coffee; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

XCVMTest

Software Authors:   YuanHai Xiao; Alexander Gordon and Andrei Yakovlev
Referenced in: 2 Publications (2014–2017)
Related Software: R; Quicksort; ElemStatLearn; UCI-ml
Main Fields: Statistics (62-XX); Computer science (68-XX)

adjclust

Software Authors:   Christophe Ambroise, Shubham Chaturvedi, Alia Dehman, Michel Koskas, Pierre Neuvial, Guillem Rigaill, Nathalie Vialaneix
Referenced in: 1 Publication (2021)
Related Software: CONISS; ClustGeo; capushe; Matrix; HiTC; snpStats; …
Main Fields: Statistics (62-XX)

AutoFACT

Software Authors:   Koski, L.B., Gray, M.W., Lang, B.F., Burger, G.
Referenced in: 1 Publication (2007)
Related Software: BLAST; Blast2GO; Pfam; PSI-BLAST; Profunc; MUSCLE; …
Main Fields: Biology and other natural sciences (92-XX)

BEDOPS

Software Authors:   Shane Neph, Alex P. Reynolds, M. Scott Kuehn, John A. Stamatoyannopoulos
Referenced in: 2 Publications (2016–2022)
Related Software: Scala; Galaxy; ROAST; featureCounts; Rsubread; recount; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

BioGrapher

Software Authors:   Viswanathan, Rama; Liang, Sijia; Yang, Yang; Jungck, John R.
Referenced in: 2 Publications (2015–2016)
Related Software: JavaBENZER; Excel; VBA; Visual Basic; Graphviz
Main Fields: Combinatorics (05-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

BisoGenet

Software Authors:   Martin, A., Ochagavia, M. E., Rabasa, L. C., Miranda, J., Fernandez‐de Cossio, J., Bringas, R.
Referenced in: 1 Publication (2018)
Related Software:
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

clustRviz

Software Authors:   Weylandt, Michael; Nagorski, John; Allen, Genevera I.
Referenced in: 2 Publications (2020–2021)
Related Software: clusterpath; ConvexLAR; t-SNE; k-means++; DEseq
Main Fields: Statistics (62-XX); Computer science (68-XX)

ConFunc

Software Authors:   Mark N. Wass, Michael J. E. Sternberg
Referenced in: 1 Publication (2010)
Related Software: ConSeq; PSLpred; iTOL; MAMMOTH; TM-align; BLAST; …
Main Fields: Biology and other natural sciences (92-XX)

CoreSNP

Software Authors:   Guzzi, Pietro Hiram; Agapito, Giuseppe; Cannataro, Mario
Referenced in: 2 Publications (2014–2019)
Related Software: Cloud4SNP; MapReduce
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

deBWT

Software Authors:   Liu, B.; Zhu, D.; Wang, Y.
Referenced in: 2 Publications (2017–2020)
Related Software:
Main Fields: Computer science (68-XX)

GALGO

Software Authors:   Trevino V, Falciani F
Referenced in: 0 Publications
Related Software: R; rJava; glmpath; bestglm; MuMIn; Glmulti; …
Main Fields:

Genoviz

Software Authors:   Helt GA, Nicol JW, Erwin E, Blossom E, Blanchard SG, Chervitz SA et al
Referenced in: 1 Publication (2016)
Related Software: Galaxy; ROAST; featureCounts; Rsubread; recount; PROPER; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

Gviz

Software Authors:   Florian Hahne, Robert Ivanek
Referenced in: 2 Publications (2016–2021)
Related Software: STAR; BSgenome; TopHat; FastQC; KEGG; edgeR; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

HTSanalyzeR

Software Authors:   Xin Wang, Camille Terfve, John C. Rose, Florian Markowetz
Referenced in: 1 Publication (2022)
Related Software: ModuleDiscoverer; SigMod; DOMINO; NetSig; DIAMOnD; SANTA; …
Main Fields: Biology and other natural sciences (92-XX)

i-ADHoRe

Software Authors:   Proost, S., Fostier, J., De Witte, D., Dhoedt, B., Demeester, P., Van de Peer, Y., Vandepoele, K.
Referenced in: 2 Publications (2019)
Related Software: CYNTENATOR; CAMSA; hybridSPAdes; GTED; HINGE; Canu; …
Main Fields: General and overarching topics; collections (00-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

INFUSE

Software Authors:   Dunemann, Oliver; Geist, Ingolf; Jesse, Roland; Sattler, Kai-Uwe; Stephanik, Andreas
Referenced in: 2 Publications (2002–2003)
Related Software:
Main Fields: Computer science (68-XX)

LUMPY

Software Authors:   Ryan M. Layer, Colby Chiang, Aaron R. Quinlan, Ira M. Hall
Referenced in: 1 Publication (2017)
Related Software: Pindel; Delly; wgsim; Samtools; YAHA; GitHub; …
Main Fields: Biology and other natural sciences (92-XX)

ntCard

Software Authors:   Mohamadi, H., Khan, H., Birol, I.
Referenced in: 2 Publications (2019–2020)
Related Software: TTA Lynx; CodonTest; ALF; xREI; RevTrans; MACSE; …
Main Fields: Biology and other natural sciences (92-XX)

pcaReduce

Software Authors:   Justina Zurauskiene. Christopher Yau
Referenced in: 2 Publications (2017–2022)
Related Software: DIMM-SC; umap; PRMLT; Sincera; SC3; pdfCluster; …
Main Fields: Statistics (62-XX); Computer science (68-XX)

phyloscanner

Software Authors:   Wymant C, Hall M, Ratmann O, Bonsall D, Golubchik T de Cesare M, Gall A, Cornelissen M, Fraser C
Referenced in: 2 Publications (2018–2022)
Related Software: BoundedCoalescent; phylodyn; SimPhy; Rcpp; ape; R; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Statistics (62-XX)

QAPgrid

Software Authors:   Inostroza-Ponta M, Berretta R, Moscato P
Referenced in: 2 Publications (2017–2021)
Related Software: HAS-QAP; Wumpus; QAPLIB; ViennaRNA; IgTree; Decombinator; …
Main Fields: General and overarching topics; collections (00-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

saa

Software Authors:   Zhao, Sihai Dave
Referenced in: 2 Publications (2017–2021)
Related Software: TULIP; ranger; limma; glmnet; Bioconductor; LDAK; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

sansSouci

Software Authors:   Durand, Guillermo; Blanchard, Gilles; Neuvial, Pierre; Roquain, Etienne
Referenced in: 2 Publications (2020)
Related Software: GitHub; R
Main Fields: Statistics (62-XX)

Starr

Software Authors:   Benedikt Zacher, Achim Tresch
Referenced in: 0 Publications
Related Software: Bioconductor; Ringo; R
Main Fields:

TESD

Software Authors:   Grégory Deceliere, Yann Letrillard, Sandrine Charles, Christian Biémont
Referenced in: 1 Publication (2008)
Related Software:
Main Fields: Probability theory and stochastic processes (60-XX); Biology and other natural sciences (92-XX)

TOUCAN

Software Authors:   Aerts, S., Van Loo, P., Thijs, G., Maye r, H., de Martin, R., Moreau, Y., De Moor, B.
Referenced in: 1 Publication (2007)
Related Software: SMART; DAMBE; AMADA; YACOP; GOtcha; ESTAP; …
Main Fields: Biology and other natural sciences (92-XX)

VATRAM

Software Authors:   Jens Quedenfeld, Sven Rahmann
Referenced in: 1 Publication (2017)
Related Software:
Main Fields: Biology and other natural sciences (92-XX)

wCluto

Software Authors:   Matthew D. Rasmussen; Mukund S. Deshpande; George Karypis; James Johnson; John A. Crow; Ernest F. Retzel
Referenced in: 0 Publications
Related Software: WordNet; eXist; Jalview; PROSITE; MUSCLE; ClustalW
Main Fields:

abSNP

Software Authors:   Mao, Shunfu; Mohajer, Soheil; Ramachandran, Kannan; Tse, David; Kannan, Sreeram
Referenced in: 1 Publication (2017)
Related Software: Sniper; GlfMultiples; RNASeqReadSimulator; SNVMix; VarScan; RSEM; …
Main Fields: Biology and other natural sciences (92-XX)

Aevol

Software Authors:   Bérénice Batut, David P Parsons, Stephan Fischer, Guillaume Beslon, Carole Knibbe
Referenced in: 1 Publication (2016)
Related Software: ALF; INDELible; SimPhy
Main Fields: Biology and other natural sciences (92-XX)

aPCoA

Software Authors:   Yushu Shi
Referenced in: 0 Publications
Related Software: mvabund; shiny; R
Main Fields:

ArchiLD

Software Authors:   Melchiotti, R.; Rötzschke, O.; Poidinger, M.
Referenced in: 1 Publication (2020)
Related Software: MetNetGE; WebMap
Main Fields: Statistical mechanics, structure of matter (82-XX)

AugmentedPCA

Software Authors:   William E. Carson IV, Austin Talbot, David Carlson
Referenced in: 0 Publications
Related Software: SciPy; UMAP; NumPy; Scikit; Python
Main Fields:

Bedtoolsr

Software Authors:   Mayura N. Patwardhan, Craig D. Wenger, Eric S. Davis, Douglas H. Phanstiel
Referenced in: 0 Publications
Related Software: valr; Travis CI; testthat; BEDTools; pybedtools; R
Main Fields:

bigQF

Software Authors:   Thomas Lumley
Referenced in: 1 Publication (2019)
Related Software: AS 204; SKAT; AS 155; GitHub; R
Main Fields: Statistics (62-XX)