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Found 128 Software Packages (Results 1–100)

ClustalW

Software Authors:   J. Thompson-Maaloum, D. Higgins, T. Gibson
Referenced in: 99 Publications (1996–2022)
Related Software: MUSCLE; MAFFT; BLAST; T-coffee; PSI-BLAST; DIALIGN; …
Main Fields: Combinatorics (05-XX); Statistics (62-XX); Computer science (68-XX)

MUSCLE

Software Authors:   R.C. Edgar
Referenced in: 49 Publications (2005–2022)
Related Software: ClustalW; MAFFT; T-coffee; BLAST; PSI-BLAST; DIALIGN; …
Main Fields: Probability theory and stochastic processes (60-XX); Statistics (62-XX); Computer science (68-XX)

MAFFT

Software Authors:   Katoh K., Misawa K., Kuma K., Miyata T.
Referenced in: 26 Publications (2005–2021)
Related Software: MUSCLE; ClustalW; T-coffee; ProbCons; DIALIGN; Clustal X; …
Main Fields: Probability theory and stochastic processes (60-XX); Statistics (62-XX); Computer science (68-XX)

T-coffee

Software Authors:   C. Notredame, D.G. Higgins, J. Heringa
Referenced in: 30 Publications (2004–2022)
Related Software: ClustalW; MUSCLE; MAFFT; DIALIGN; ProbCons; Balibase; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

Soap

Software Authors:   Ruiqiang Li; Yingrui Li; Karsten Kristiansen; Jun Wang
Referenced in: 26 Publications (2010–2021)
Related Software: BWA; Samtools; BLAT; R; SSAHA; PatternHunter; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

DIALIGN

Software Authors:   B. Morgenstern
Referenced in: 23 Publications (2001–2022)
Related Software: ClustalW; MUSCLE; T-coffee; MAFFT; ProbCons; Balibase; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

MODELLER

Software Authors:   Andrej Šali et.al.
Referenced in: 19 Publications (2005–2021)
Related Software: BLAST; PSI-BLAST; PROCHECK; SWISS-MODEL; I-TASSER; PSIPRED; …
Main Fields: Combinatorics (05-XX); Several complex variables and analytic spaces (32-XX); Statistics (62-XX)

Clustal X

Software Authors:   Larkin, M. A.; Blackshields, G.; Brown, N.; Chenna, R.; Mcgettigan, P. A.; Mcwilliam, H.; Valentin, F.; Wallace, I. M.; Wilm, A.; Lopez, R.
Referenced in: 23 Publications (2006–2021)
Related Software: ClustalW; MUSCLE; MAFFT; T-coffee; DIALIGN; ProbCons; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)

WebLogo

Software Authors:   G.E. Crooks, G. Hon, J.-M. Chandonia, S.E. Brenner
Referenced in: 13 Publications (2004–2021)
Related Software: TRANSFAC; BioProspector; R; RegulonDB; LIBSVM; JASPAR; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)

HMMER

Software Authors:   Robert D. Finn, Jody Clements, Sean R. Eddy
Referenced in: 12 Publications (2006–2019)
Related Software: ClustalW; UniProt; MUSCLE; MAFFT; R; MrBayes; …
Main Fields: General and overarching topics; collections (00-XX); Harmonic analysis on Euclidean spaces (42-XX); Statistics (62-XX)

CLUSTAL

Software Authors:   Higgins, D. G.; Sharp, P. M.
Referenced in: 14 Publications (1992–2017)
Related Software: ClustalW; MUSCLE; T-coffee; MAFFT; DIALIGN; Balibase; …
Main Fields: Probability theory and stochastic processes (60-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)

Mauve

Software Authors:   Darling AC, Mau B, Blattner FR, Perna NT
Referenced in: 11 Publications (2008–2022)
Related Software: OXBench; LAGAN; ClustalW; T-coffee; BLASTZ; BLAT; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Statistics (62-XX)

IsoRank

Software Authors:   Rohit Singh, Jinbo Xu, Bonnie Berger
Referenced in: 12 Publications (2013–2022)
Related Software: IsoRankN; GHOST; Natalie; DeepWalk; node2vec; word2vec; …
Main Fields: Combinatorics (05-XX); Probability theory and stochastic processes (60-XX); Operations research, mathematical programming (90-XX)

ProbCons

Software Authors:   Chuong B. Do; Mahathi S.P. Mahabhashyam; Michael Brudno; Serafim Batzoglou
Referenced in: 9 Publications (2008–2021)
Related Software: MUSCLE; MAFFT; ClustalW; T-coffee; DIALIGN; Probalign; …
Main Fields: History and biography (01-XX); Statistics (62-XX); Computer science (68-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)

MEME

Software Authors:   Bailey, T.L., Williams, N., Misleh, C., Li, W.W.
Referenced in: 9 Publications (2011–2018)
Related Software: BLAT; R; DIALIGN; ANNOVAR; KEGG; WEKA; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Numerical analysis (65-XX)

Infernal

Software Authors:   Nawrocki EP, Kolbe DL, Eddy SR
Referenced in: 7 Publications (2010–2018)
Related Software: Rfam; R; ClustalW; Bioconductor; Mauve; Mugsy; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

Jalview

Software Authors:   Clamp M, Cuff J, Searle SM et al
Referenced in: 1 Publication (2017)
Related Software: UniProt; MUSCLE; ClustalW; MrBayes; BMGE; CINEMA; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

SSAHA

Software Authors:   Ning Z, Cox AJ, Mullikin JC
Referenced in: 3 Publications (2005–2016)
Related Software: Soap; BLAT; BLAST; PSI-BLAST; KEGG; SHRiMP; …
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

FUGUE

Software Authors:   Jiye Shi, Tom L Blundell, Kenji Mizuguchi
Referenced in: 4 Publications (2010–2016)
Related Software: GenThreader; MAFFT; PISCES; LIBSVM; Infernal; PROCHECK; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

INDELible

Software Authors:   Fletcher W, Yang ZH
Referenced in: 7 Publications (2012–2021)
Related Software: SimPhy; ASTRID; DendroPy; RAxML; OCTAL; FastMe; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Computer science (68-XX)

SABmark

Software Authors:   Walle, I.V., Lasters, I., Wyns, L.
Referenced in: 4 Publications (2013–2017)
Related Software: MUSCLE; ClustalW; OXBench; Kalign; ProbCons; Balibase; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

SEGID

Software Authors:   Wang, L.; Xu, Y.
Referenced in: 8 Publications (2005–2011)
Related Software: MAVG; WebGestalt
Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX)

JPred

Software Authors:   Cuff JA, Clamp ME, Siddiqui AS, Finlay M, Barton GJ
Referenced in: 2 Publications (2004)
Related Software: BLAST; PSI-BLAST; ProtVec; ACCpro; GitHub; SSpro; …
Main Fields: Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

Rose

Software Authors:   J. Stoye, D. Evers, F. Meyer
Referenced in: 5 Publications (2008–2013)
Related Software: ClustalW; Clustal X; CLUSTAL; Pfam; Bali-phy; HMMoC; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)

3DCoffee

Software Authors:   O. O’Sullivan, K. Suhre, C. Abergel, D. G. Higgins, C. Notredame
Referenced in: 5 Publications (2005–2016)
Related Software: ClustalW; ProbCons; T-coffee; MUSCLE; MAFFT; SABmark; …
Main Fields: History and biography (01-XX); Statistics (62-XX); Numerical analysis (65-XX)

DIALIGN-TX

Software Authors:   Subramanian AR, Kaufmann M, Morgenstern B
Referenced in: 4 Publications (2012–2017)
Related Software: DIALIGN; MUSCLE; T-coffee; ClustalW; Noisy; ProbCons; …
Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

HHpred

Software Authors:   J. Söding, A. Biegert, A. Lupas
Referenced in: 3 Publications (2014–2018)
Related Software: Pfam; BioGRID; PSI-BLAST; ARACNE; KEGG; minet; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Computer science (68-XX)

OXBench

Software Authors:   Raghava GPS, Searle SMJ, Audley PC, Barber JD, Barton GJ
Referenced in: 5 Publications (2008–2017)
Related Software: ClustalW; SABmark; MUSCLE; MrBayes; Mauve; Kalign; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

Probalign

Software Authors:   Roshan U, Livesay DR
Referenced in: 4 Publications (2013–2017)
Related Software: MUSCLE; ClustalW; ProbCons; MAFFT; T-coffee; SABmark; …
Main Fields: 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)

GeneMarkS

Software Authors:   Besemer J, Lomsadze A, Borodovsky M
Referenced in: 4 Publications (2004–2017)
Related Software: UniProt; InterProScan; EasyGene; Prodigal; R; RegulonDB; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Computer science (68-XX)

MARNA

Software Authors:   Sven Siebert; Rolf Backofen
Referenced in: 3 Publications (2008–2015)
Related Software: Rfam; STRAL; ClustalW; MAFFT; T-coffee; RSEARCH; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

Mugsy

Software Authors:   Samuel V. Angiuoli, Steven L. Salzberg
Referenced in: 4 Publications (2013–2022)
Related Software: MUSCLE; HMMER; Mauve; MrBayes; iGTP; ProtTest 3; …
Main Fields: General and overarching topics; collections (00-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

Noisy

Software Authors:   Dress AW, Flamm C, Fritzsch G, Grüunewald S, Kruspe M, Prohaska SJ, Stadler PF
Referenced in: 2 Publications (2017–2018)
Related Software: T-coffee; DIALIGN; DIALIGN-TX; SABmark; Clustal X; MUSCLE; …
Main Fields: Combinatorics (05-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

PROMALS

Software Authors:   Pei, Jimin; Kim, Bong-Hyun; Tang, Ming; Grishin, Nick V
Referenced in: 3 Publications (2011–2013)
Related Software: Kalign; MUSCLE; PCMA; T-coffee; MrBayes; Gegenees; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

BFAST

Software Authors:   Homer, N., Merriman, B., Nelson, S.F.
Referenced in: 3 Publications (2010–2017)
Related Software: SHRiMP; PatternHunter; BWA; Soap; ART; GASSST; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

jpHMM

Software Authors:   A.-K. Schultz, I. Bulla, M. Abdou-Chekaraou, E. Gordien, B. Morgenstern, F. Zoulim, P. Dény, M. Stanke
Referenced in: 1 Publication (2011)
Related Software: CONSEL; Scoredist; HyPhy; RDP2; SplitsTree; Seq-Gen
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

M-Coffee

Software Authors:   Wallace IM, O’Sullivan O, Higgins DG et al
Referenced in: 3 Publications (2014–2017)
Related Software: Kalign; MUSCLE; MAFFT; OXBench; UniProt; SABmark; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Biology and other natural sciences (92-XX)

MUMMALS

Software Authors:   Pei J, Grishin NV
Referenced in: 3 Publications (2015–2017)
Related Software: MUSCLE; ClustalW; ProbCons; MAFFT; T-coffee; Balibase; …
Main Fields: Statistics (62-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

PartTree

Software Authors:   Katoh, K., Toh, H.
Referenced in: 3 Publications (2008–2016)
Related Software: ClustalW; OXBench; SABmark; Kalign; MUSCLE; ProbCons; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

PCMA

Software Authors:   Pei J, Sadreyev R, Grishin NV
Referenced in: 4 Publications (2011–2017)
Related Software: T-coffee; MUSCLE; Kalign; Probalign; MUMMALS; DIALIGN-TX; …
Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

PHYLO_WIN

Software Authors:   Galtier N, Gouy M, Gautier C
Referenced in: 2 Publications (2010–2017)
Related Software: SEAVIEW; CINEMA; Jalview; UniProt; Hetero; SplitsTree; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)

SARSA

Software Authors:   Yen-Fu Chang; Yen-Lin Huang; Chin Lung Lu
Referenced in: 2 Publications (2009–2015)
Related Software: FR3D; DIAL; ARTS; SCOPmap; TM-align; BioJava; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

SEAVIEW

Software Authors:   Galtier N, Gouy M, Gautier C
Referenced in: 2 Publications (2010–2017)
Related Software: PHYLO_WIN; CINEMA; Jalview; UniProt; Hetero; SplitsTree; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)

AL2CO

Software Authors:   Pei, J.; Grishin, N.
Referenced in: 2 Publications (2010–2011)
Related Software: MPRAP; AAindex; ClustalW; TMBpro; R; H2r; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

ASPIC

Software Authors:   Bonizzoni P, Rizzi R, Pesole G
Referenced in: 1 Publication (2015)
Related Software: ASTALAVISTA; Exogean; EMIRGE; ViennaRNA; TagCleaner; OligoWalk; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

BMGE

Software Authors:   Criscuolo A, Gribaldo S
Referenced in: 2 Publications (2014–2017)
Related Software: MrBayes; MUSCLE; Jalview; M-Coffee; AWTY; Cd-hit; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Biology and other natural sciences (92-XX)

CINEMA

Software Authors:   Parry-Smith, D.J., Payne, A.W.R, Michie, A.D., Attwood, T.K.
Referenced in: 1 Publication (2017)
Related Software: PHYLO_WIN; SEAVIEW; Jalview; UniProt; MUSCLE; Hetero; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

IPknot

Software Authors:   Sato K, Kato Y, Hamada M, Akutsu T, Asai K
Referenced in: 3 Publications (2012–2017)
Related Software: jViz.Rna; Mfold; GitHub; EMIRGE; ViennaRNA; TagCleaner; …
Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Computer science (68-XX)

MSAProbs

Software Authors:   Y. Liu, B. Schmidt, and D. L. Maskell
Referenced in: 2 Publications (2013–2017)
Related Software: T-coffee; Probalign; Kalign; MUSCLE; ClustalW; ProbCons; …
Main Fields: Biology and other natural sciences (92-XX)

MuSiC

Software Authors:   Yin Te Tsai, Yen Pin Huang, Ching Ta Yu, Chin Lung Lu
Referenced in: 3 Publications (2007)
Related Software: PROSITE; PSIPRED
Main Fields: Numerical analysis (65-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)

NAST

Software Authors:   T. Z. DeSantis, Jr., P. Hugenholtz, K. Keller, E. L. Brodie, N. Larsen, Y. M. Piceno, R. Phan, G. L. Andersen
Referenced in: 2 Publications (2013–2015)
Related Software: MrBayes; Gegenees; POY; MLTreeMap; SEPP; GapCoder; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

PAL2NAL

Software Authors:   Suyama, M.; Torrents, D.; Bork, P.
Referenced in: 1 Publication (2018)
Related Software: MrBayes; PAML; DAMBE; MUSCLE; MEGA; MODELTEST; …
Main Fields: Biology and other natural sciences (92-XX)

PCAP

Software Authors:   Huang, X., Wang, J., Aluru, S., Yang, S.P., Hillier, L.
Referenced in: 3 Publications (2007–2017)
Related Software: ClustalW; JBROWSE; InterProScan; MAKER; EasyGene; YACOP; …
Main Fields: General and overarching topics; collections (00-XX); Probability theory and stochastic processes (60-XX); Operations research, mathematical programming (90-XX)

PROMALS3D

Software Authors:   Jimin Pei, Nick V. Grishin
Referenced in: 2 Publications (2016–2017)
Related Software: MUSCLE; MAFFT; Opal; LEON; RASCAL; GUIDANCE2; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

RASCAL

Software Authors:   Thompson JD, Thierry JC, Poch O
Referenced in: 3 Publications (2004–2017)
Related Software: T-coffee; ClustalW; Balibase; Opal; LEON; GUIDANCE2; …
Main Fields: Numerical analysis (65-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

STRAL

Software Authors:   Deniz Dalli, Andreas Wilm, Indra Mainz, Gerhard Steger
Referenced in: 1 Publication (2008)
Related Software: MARNA; ClustalW; ProbCons; MAFFT; RSEARCH; Rfam; …
Main Fields: Biology and other natural sciences (92-XX)

trimAl

Software Authors:   Capella-Gutiérrez S, Silla-Martínez JM, Gabaldón T
Referenced in: 2 Publications (2017–2019)
Related Software: MAFFT; MrBayes; PersistenceImages; CliqueTop; Ripser; GitHub; …
Main Fields: Algebraic geometry (14-XX); Algebraic topology (55-XX); Statistics (62-XX)

AQUA

Software Authors:   Muller J, Creevey CJ, Thompson JD, Arendt D, Bork P
Referenced in: 1 Publication (2017)
Related Software: Opal; LEON; RASCAL; GUIDANCE2; Probalign; PCMA; …
Main Fields: Biology and other natural sciences (92-XX)

Bambino

Software Authors:   . M.N. Edmonson, J. Zhang, C. Yan, R.P. Finney, D.M. Meerzaman, K.H. Buetow
Referenced in: 1 Publication (2014)
Related Software: UniProt; WebGestalt; KDDONTO; Protege; GeoSVM; GAMES; …
Main Fields: General and overarching topics; collections (00-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

bamboo

Software Authors:   Li Q, Dahl DB, Vannucci M, Hyun Joo, Tsai JW
Referenced in: 0 Publications
Related Software: shallot; rscala; CRAN; MLlib; SparkR; sparklyr; …
Main Fields:

CENTROIDFOLD

Software Authors:   Sato K, Hamada M, Asai K, Mituyama T
Referenced in: 1 Publication (2015)
Related Software: EMIRGE; ViennaRNA; TagCleaner; OligoWalk; OptiRNAi; ASTALAVISTA; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

CRASP

Software Authors:   Afonnikov, D. A.; Kolchanov, N. A.
Referenced in: 1 Publication (2021)
Related Software: SILGGM; PSICOV; leapp
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

DBAli tools

Software Authors:   Marc A. Marti-Renom, Ursula Pieper, M. S. Madhusudhan, Andrea Rossi, Narayanan Eswar, Fred P. Davis, Fátima Al-Shahrour, Joaquín Dopazo, Andrej Sali
Referenced in: 1 Publication (2016)
Related Software: PlantTFDB; eggNOG; ELM; dbCAN; antiSMASH; dissectHMMER; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

DbClustal

Software Authors:   J. D. Thompson, F. Plewniak, J.-C. Thierry, O. Poch
Referenced in: 2 Publications (2001–2011)
Related Software: ClustalW; DIALIGN; ViennaRNA; MrBayes; tYNA; PhyNav; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

Expresso

Software Authors:   F. Armougom, S. Moretti, O. Poirot et al.
Referenced in: 1 Publication (2013)
Related Software: Crossbow; Probalign; k-means++; Jnomics; T-coffee; Kalign; …
Main Fields: Biology and other natural sciences (92-XX)

GABIOS-LIB

Software Authors:   Abdeddaïm, Saïd; Morgenstern, Burkhard
Referenced in: 2 Publications (2001–2002)
Related Software: DIALIGN; Balibase; DbClustal; ClustalW
Main Fields: Numerical analysis (65-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

H2r

Software Authors:   Rainer Merkl; Matthias Zwick
Referenced in: 2 Publications (2010–2011)
Related Software: AL2CO; SHARP2; meta-PPISP
Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)

LEON

Software Authors:   Thompson, J.D., Prigent, V., Poch, O.
Referenced in: 1 Publication (2017)
Related Software: Opal; RASCAL; GUIDANCE2; Probalign; PCMA; AQUA; …
Main Fields: Biology and other natural sciences (92-XX)

LocARNAscan

Software Authors:   Will S, Siebauer MF, Heyne S et al
Referenced in: 2 Publications (2017–2018)
Related Software: BLAT; MergeAlign; MEME; DIALIGN; Footprinter; ViennaRNA; …
Main Fields: General and overarching topics; collections (00-XX); Computer science (68-XX); Biology and other natural sciences (92-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)

MergeAlign

Software Authors:   Collingridge, P.W., Kelly, S.
Referenced in: 2 Publications (2017–2018)
Related Software: LocARNAscan; BLAT; MEME; DIALIGN; Footprinter; Opal; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

MICAlign

Software Authors:   X. Xia, S. Zhang, Y. Su, Z. Sun
Referenced in: 1 Publication (2013)
Related Software: Crossbow; Probalign; k-means++; Jnomics; T-coffee; Kalign; …
Main Fields: Biology and other natural sciences (92-XX)

MinRMS

Software Authors:   Jewett, A.I.; Huang, C.C.; Ferrin, T.E.
Referenced in: 1 Publication (2009)
Related Software: EzyPred; Signal-3L; Signal-CF; Cell-PLoc; Pajek; TM-align
Main Fields: Combinatorics (05-XX); Biology and other natural sciences (92-XX)

MISHIMA

Software Authors:   Kryukov, K.; Saitou, N.
Referenced in: 1 Publication (2011)
Related Software: MUSCLE; Clustal X; R; pCLUSTAL; MUMMER; AVID; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

PRALINE

Software Authors:   V. A. Simossis; J. Heringa
Referenced in: 1 Publication (2017)
Related Software: Hetero; SplitsTree; MrBayes; Tracer; MulRF; iGTP; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

R-Coffee

Software Authors:   Wilm A, Higgins DG, Notredame C
Referenced in: 1 Publication (2015)
Related Software: EMIRGE; ViennaRNA; TagCleaner; OligoWalk; OptiRNAi; ASTALAVISTA; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

R2R

Software Authors:   Weinberg Z, Breaker RR
Referenced in: 1 Publication (2015)
Related Software: jViz.Rna; PseudoViewer3; Infernal; VARNA; Rfam; EMIRGE; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

RevTrans

Software Authors:   Rasmus Wernersson, Anders Gorm Pedersen
Referenced in: 1 Publication (2020)
Related Software: TTA Lynx; CodonTest; ALF; xREI; MACSE; EasyCodeML; …
Main Fields: Biology and other natural sciences (92-XX)

SATCHMO-JS

Software Authors:   Hagopian, R., Davidson, J., Datta, R., Jarvis, G., Sjölander, K.
Referenced in: 1 Publication (2013)
Related Software: MrBayes; Gegenees; POY; MLTreeMap; SEPP; GapCoder; …
Main Fields: Biology and other natural sciences (92-XX)

Secator

Software Authors:   Wicker N, Perrin GR, Thierry JC, Poch O
Referenced in: 1 Publication (2015)
Related Software: MSVMpack; UCI-ml; BLAST; ProClust; Scoredist; CLUSS; …
Main Fields: Statistics (62-XX); Numerical analysis (65-XX)

SpEED

Software Authors:   Ilie, L.; Ilie, S.; Mansouri Bigvand, A.
Referenced in: 2 Publications (2017)
Related Software: CLARK; MetaProb; PatternHunter; SHRiMP; MetaCluster; ONE; …
Main Fields: Biology and other natural sciences (92-XX)

STRAP

Software Authors:   Gille C, Frommel C
Referenced in: 1 Publication (2017)
Related Software: Hetero; SplitsTree; MrBayes; Tracer; MulRF; iGTP; …
Main Fields: General and overarching topics; collections (00-XX); Biology and other natural sciences (92-XX)

tracker2

Software Authors:   Otto, Wolfgang; Stadler, Peter F.; Prohaska, Sonja J.
Referenced in: 2 Publications (2011–2021)
Related Software: T-coffee; DIALIGN; BLAST; PSI-BLAST; Clustal X; MUSCLE; …
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

AlexSys

Software Authors:   Aniba, M.R., Poch, O., Marchler-Bauer, A., Thompson, J.D.
Referenced in: 1 Publication (2017)
Related Software: Opal; LEON; RASCAL; GUIDANCE2; Probalign; PCMA; …
Main Fields: Biology and other natural sciences (92-XX)

BayesCAT

Software Authors:   Shim, Heejung; Larget, Bret
Referenced in: 1 Publication (2018)
Related Software: SATe; Bali-phy; Statalign
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

CAIcal

Software Authors:   Puigbò P, Bravo IG, Garcia-Vallve S
Referenced in: 1 Publication (2020)
Related Software: TTA Lynx; CodonTest; ALF; xREI; RevTrans; MACSE; …
Main Fields: Biology and other natural sciences (92-XX)

CCMpred

Software Authors:   Stefan Seemayer, Markus Gruber, Johannes Söding
Referenced in: 1 Publication (2016)
Related Software: PlantTFDB; eggNOG; ELM; dbCAN; antiSMASH; dissectHMMER; …
Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)

Clustal

Software Authors:   Julie D. Thompson; Toby J. Gibson; Frédéric Plewniak; François Jeanmougin; Desmond G. Higgins
Referenced in: 1 Publication (2012)
Related Software: MrBayes; phangorn; Seq-Gen; LASER; MODELTEST; pegas; …
Main Fields: Probability theory and stochastic processes (60-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)

COBALT

Software Authors:   Papadopoulos, J.S., Agarwala, R.
Referenced in: 1 Publication (2013)
Related Software: MrBayes; Gegenees; POY; MLTreeMap; SEPP; GapCoder; …
Main Fields: Biology and other natural sciences (92-XX)

CUDAMPF++

Software Authors:   Hanyu Jiang, Narayan Ganesan, Yu-Dong Yao
Referenced in: 0 Publications
Related Software: HMMER; CUDA
Main Fields:

Darwin

Software Authors:   G. H. Gonnet, M. T. Hallett, C. Korostensky, L. Bernardin
Referenced in: 1 Publication (2008)
Related Software:
Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)

3dLOGO

Software Authors:   Via, Allegra; Peluso, Daniele; Gherardini, Pier Federico; De Rinaldis, Emanuele; Colombo, Teresa; Ausiello, Gabriele; Helmer-Citterich, Manuela
Referenced in: 0 Publications
Related Software:
Main Fields:

Facet

Software Authors:   DeBlasio, D.F.; Kececioglu, J.D
Referenced in: 1 Publication (2017)
Related Software: Opal; LEON; RASCAL; GUIDANCE2; Probalign; PCMA; …
Main Fields: Biology and other natural sciences (92-XX)

FASTSP

Software Authors:   Siavash Mirarab, Tandy Warnow
Referenced in: 1 Publication (2013)
Related Software: MrBayes; Gegenees; POY; MLTreeMap; SEPP; GapCoder; …
Main Fields: Biology and other natural sciences (92-XX)

FPQRNA

Software Authors:   Xia, Fei; Dou, Yong; Lei, Guo-Qing
Referenced in: 0 Publications
Related Software:
Main Fields:

G-MSA

Software Authors:   Blazewicz, J., Frohmberg, W., Kierzynka, M., Wojciechowski, P.
Referenced in: 1 Publication (2016)
Related Software: Bowtie 2; RazerS; Musket; G-DNA; G-MAPSEQ
Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)

GSNAP

Software Authors:   Thomas D. Wu, Jens Reeder, Michael Lawrence, Gabe Becker, Matthew J. Brauer
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)

GUIDANCE2

Software Authors:   Sela, I., Ashkenazy, H., Katoh, K., Pupko, T.
Referenced in: 1 Publication (2017)
Related Software: Opal; LEON; RASCAL; Probalign; PCMA; AQUA; …
Main Fields: Biology and other natural sciences (92-XX)