Works matching DE "GENETIC software"

Results: 278

Failure Effect of Seismic Faults and the Slope Stability Along Highways Under Seismic Hazards Based on Dynamic Finite Element Analysis and Genetic Algorithm.

Published in:

Geotechnical & Geological Engineering, 2021, v. 39, n. 7, p. 5191, doi. 10.1007/s10706-021-01824-w

By:

Yanhong, Li;
Zeng, Guo;
Haibin, Jing;
Hongqiang, Li;
Quancai, Deng

Publication type:

Article

A novel SCCA approach via truncated ℓ<sub>1</sub>-norm and truncated group lasso for brain imaging genetics.

Published in:

Bioinformatics, 2018, v. 34, n. 2, p. 278, doi. 10.1093/bioinformatics/btx594

By:

Du, Lei;
Liu, Kefei;
Zhang, Tuo;
Yao, Xiaohui;
Yan, Jingwen;
Risacher, Shannon L;
Han, Junwei;
Guo, Lei;
Saykin, Andrew J;
Shen, Li

Publication type:

Article

LinkageMapView—rendering high-resolution linkage and QTL maps.

Published in:

Bioinformatics, 2018, v. 34, n. 2, p. 306, doi. 10.1093/bioinformatics/btx576

By:

Ouellette, Lisa A;
Reid, Robert W;
Blanchard, Steven G;
Brouwer, Cory R

Publication type:

Article

PhylOligo: a package to identify contaminant or untargeted organism sequences in genome assemblies.

Published in:

Bioinformatics, 2017, v. 33, n. 20, p. 3283, doi. 10.1093/bioinformatics/btx396

By:

Mallet, Ludovic;
Bitard-Feildel, Tristan;
Cerutti, Franck;
Chiapello, Hélène

Publication type:

Article

admixturegraph: an R package for admixture graph manipulation and fitting.

Published in:

2017

By:

Leppälä, Kalle;
Nielsen, Svend V.;
Mailund, Thomas

Publication type:

Product Review

Riborex: fast and flexible identification of differential translation from Ribo-seq data.

Published in:

2017

By:

Wenzheng Li;
Weili Wang;
Uren, Philip J.;
Penalva, Luiz O. F.;
Smith, Andrew D.

Publication type:

Product Review

CHRR: coordinate hit-and-run with rounding for uniform sampling of constraint-based models.

Published in:

2017

By:

Haraldsdóttir, Hulda S.;
Cousins, Ben;
Thiele, Ines;
Fleming, Ronan M. T.;
Vempala, Santosh

Publication type:

Product Review

FIT: statistical modeling tool for transcriptome dynamics under fluctuating field conditions.

Published in:

2017

By:

Koji Iwayama;
Yuri Aisaka;
Natsumaro Kutsuna;
Nagano, Atsushi J.

Publication type:

Product Review

LOCUST: a custom sequence locus typer for classifying microbial isolates.

Published in:

2017

By:

Brinkac, Lauren M.;
Beck, Erin;
Inman, Jason;
Venepally, Pratap;
Fouts, Derrick E.;
Sutton, Granger

Publication type:

Product Review

ISPRED4: interaction sites PREDiction in protein structures with a refining grammar model.

Published in:

2017

By:

Savojardo, Castrense;
Fariselli, Piero;
Martelli, Pier Luigi;
Casadio, Rita

Publication type:

Product Review

H(O)TA: estimation of DNA methylation and hydroxylation levels and efficiencies from time course data.

Published in:

2017

By:

Kyriakopoulos, Charalampos;
Giehr, Pascal;
Wolf, Verena

Publication type:

Product Review

ANAQUIN: a software toolkit for the analysis of spike-in controls for next generation sequencing.

Published in:

2017

By:

Wong, Ted;
Deveson, Ira W.;
Hardwick, Simon A.;
Mercer, Tim R.

Publication type:

Product Review

chainCleaner improves genome alignment specificity and sensitivity.

Published in:

Bioinformatics, 2017, v. 33, n. 11, p. 1596, doi. 10.1093/bioinformatics/btx024

By:

Suarez, Hernando G.;
Langer, Bjoern E.;
Ladde, Pradnya;
Hiller, Michael

Publication type:

Article

aRNApipe: a balanced, efficient and distributed pipeline for processing RNA-seq data in high-performance computing environments.

Published in:

2017

By:

Alonso, Arnald;
Lasseigne, Brittany N.;
Williams, Kelly;
Nielsen, Josh;
Ramaker, Ryne C.;
Hardigan, Andrew A.;
Johnston, Bobbi;
Roberts, Brian S.;
Cooper, Sara J.;
Marsal, Sara;
Myers, Richard M.

Publication type:

Product Review

BatchQC: interactive software for evaluating sample and batch effects in genomic data.

Published in:

Bioinformatics, 2016, v. 32, n. 24, p. 3836, doi. 10.1093/bioinformatics/btw538

By:

Manimaran, Solaiappan;
Selby, Heather Marie;
Okrah, Kwame;
Ruberman, Claire;
Leek, Jeffrey T.;
Quackenbush, John;
Haibe-Kains, Benjamin;
Bravo, Hector Corrada;
Johnson, W. Evan

Publication type:

Article

LongISLND: in silico sequencing of lengthy and noisy datatypes.

Published in:

Bioinformatics, 2016, v. 32, n. 24, p. 3829, doi. 10.1093/bioinformatics/btw602

By:

Bayo Lau;
Mohiyuddin, Marghoob;
Mu, John C.;
Li Tai Fang;
Asadi, Narges Bani;
Dallett, Carolina;
Lam, Hugo Y. K.

Publication type:

Article

MSAProbs-MPI: parallel multiple sequence aligner for distributed-memory systems.

Published in:

Bioinformatics, 2016, v. 32, n. 24, p. 3826, doi. 10.1093/bioinformatics/btw558

By:

González-Domínguez, Jorge;
Yongchao Liu;
Touriño, Juan;
Schmidt, Bertil

Publication type:

Article

Higher classification sensitivity of short metagenomic reads with CLARK-S.

Published in:

Bioinformatics, 2016, v. 32, n. 24, p. 3823, doi. 10.1093/bioinformatics/btw542

By:

Ounit, Rachid;
Lonardi, Stefano

Publication type:

Article

SERAPHIM: studying environmental rasters and phylogenetically informed movements.

Published in:

2016

By:

Dellicour, Simon;
Rose, Rebecca;
Faria, Nuno R.;
Lemey, Philippe;
Pybus, Oliver G.

Publication type:

Product Review

ABAEnrichment: an R package to test for gene set expression enrichment in the adult and developing human brain.

Published in:

2016

By:

Grote, Steffi;
Prüfer, Kay;
Kelso, Janet;
Dannemann, Michael

Publication type:

Product Review

RTCR: a pipeline for complete and accurate recovery of T cell repertoires from high throughput sequencing data.

Published in:

Bioinformatics, 2016, v. 32, n. 20, p. 3098, doi. 10.1093/bioinformatics/btw339

By:

Gerritsen, Bram;
Pandit, Aridaman;
Andeweg, Arno C.;
de Boer, Rob J.

Publication type:

Article

CONDOP: an R package for CONdition-Dependent Operon Predictions.

Published in:

2016

By:

Fortino, Vittorio;
Tagliaferri, Roberto;
Greco, Dario

Publication type:

Product Review

Conpair: concordance and contamination estimator for matched tumor-normal pairs.

Published in:

2016

By:

Bergmann, Ewa A.;
Bo-Juen Chen;
Arora, Kanika;
Vacic, Vladimir;
Zody, Michael C.

Publication type:

Product Review

TADtool: visual parameter identification for TAD-calling algorithms.

Published in:

2016

By:

Kruse, Kai;
Hug, Clemens B.;
Hernández-Rodríguez, Benjamín;
Vaquerizas, Juan M.

Publication type:

Product Review

Local versus global biological network alignment.

Published in:

Bioinformatics, 2016, v. 32, n. 20, p. 3155, doi. 10.1093/bioinformatics/btw348

By:

Lei Meng;
Striegel, Aaron;
Milenković, Tijana

Publication type:

Article

pSumo-CD: predicting sumoylation sites in proteins with covariance discriminant algorithm by incorporating sequence-coupled effects into general PseAAC.

Published in:

2016

By:

Jianhua Jia;
Liuxia Zhang;
Zi Liu;
Xuan Xiao;
Kuo-Chen Chou

Publication type:

Product Review

gEVAL--a web-based browser for evaluating genome assemblies.

Published in:

Bioinformatics, 2016, v. 32, n. 16, p. 2508, doi. 10.1093/bioinformatics/btw159

By:

Chow, William;
Brugger, Kim;
Caccamo, Mario;
Sealy, Ian;
Torrance, James;
Howe, Kerstin

Publication type:

Article

Unipept web services for metaproteomics analysis.

Published in:

Bioinformatics, 2016, v. 32, n. 11, p. 1746, doi. 10.1093/bioinformatics/btw039

By:

Mesuere, Bart;
Willems, Toon;
Van der Jeugt, Felix;
Devreese, Bart;
Vandamme, Peter;
Dawyndt, Peter

Publication type:

Article

flowCL: ontology-based cell population labelling in flow cytometry.

Published in:

2015

By:

Courtot, Mélanie;
Meskas, Justin;
Diehl, Alexander D.;
Droumeva, Radina;
Gottardo, Raphael;
Jalali, Adrin;
Taghiyar, Mohammad Jafar;
Maecker, Holden T.;
McCoy, J. Philip;
Ruttenberg, Alan;
Scheuermann, Richard H.;
Brinkman, Ryan R.

Publication type:

Product Review

ICMA: an integrated cardiac modeling and analysis platform.

Published in:

2015

By:

Hussan, Jagir R.;
Hunter, Peter J.;
Gladding, Patrick A.;
Greenberg, Neil;
Christie, Richard;
Wu, Alan;
Sorby, Hugh;
Thomas, James D.

Publication type:

Product Review

NMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy.

Published in:

2015

By:

Woonghee Lee;
Tonelli, Marco;
Markley, John L.

Publication type:

Product Review

Sputnik: ad hoc distributed computation.

Published in:

2015

By:

Völkel, Gunnar;
Lausser, Ludwig;
Schmid, Florian;
Kraus, Johann M.;
Kestler, Hans A.

Publication type:

Product Review

GSDS 2.0: an upgraded gene feature visualization server.

Published in:

2015

By:

Bo Hu;
Jinpu Jin;
An-Yuan Guo;
He Zhang;
Jingchu Luo;
Ge Gao

Publication type:

Product Review

GenomeCons: a web server for manipulating multiple genome sequence alignments and their consensus sequences.

Published in:

2015

By:

Tetsuya Sato;
Mikita Suyama

Publication type:

Product Review

HIPPIE: a high-throughput identification pipeline for promoter interacting enhancer elements.

Published in:

2015

By:

Yih-Chii Hwang;
Chiao-Feng Lin;
Otto Valladares;
Malamon, John;
Kuksa, Pavel P.;
Qi Zheng;
Gregory, Brian D.;
Li-San Wang

Publication type:

Product Review

Population-based structural variation discovery with Hydra-Multi.

Published in:

Bioinformatics, 2015, v. 31, n. 7, p. 1286, doi. 10.1093/bioinformatics/btu771

By:

Lindberg, Michael R.;
Hall, Ira M.;
Quinlan, Aaron R.

Publication type:

Article

SNPlice: variants that modulate Intron retention from RNA-sequencing data.

Published in:

Bioinformatics, 2015, v. 31, n. 7, p. 1191, doi. 10.1093/bioinformatics/btu804

By:

Mudvari, Prakriti;
Movassagh, Mercedeh;
Kowsari, Kamran;
Seyfi, Ali;
Kokkinaki, Maria;
Edwards, Nathan J.;
Golestaneh, Nady;
Horvath, Anelia

Publication type:

Article

JEPEG: a summary statistics based tool for gene-level joint testing of functional variants.

Published in:

Bioinformatics, 2015, v. 31, n. 7, p. 1176, doi. 10.1093/bioinformatics/btu816

By:

Donghyung Lee;
Williamson, Vernell S.;
Bigdeli, T. Bernard;
Riley, Brien P.;
Fanous, Ayman H.;
Vladimirov, Vladimir I.;
Bacanu, Silviu-Alin

Publication type:

Article

OrthoInspector 2.0: Software and database updates.

Published in:

Bioinformatics, 2015, v. 31, n. 3, p. 447, doi. 10.1093/bioinformatics/btu642

By:

Linard, Benjamin;
Allot, Alexis;
Schneider, Raphaël;
Morel, Can;
Ripp, Raymond;
Bigler, Marc;
Thompson, Julie D.;
Poch, Olivier;
Lecompte, Odile

Publication type:

Article

MulRF: a software package for phylogenetic analysis using multi-copy gene trees.

Published in:

Bioinformatics, 2015, v. 31, n. 3, p. 432, doi. 10.1093/bioinformatics/btu648

By:

Chaudhary, Ruchi;
Fernández-Baca, David;
Burleigh, John Gordon

Publication type:

Article

NOVA: a software to analyze complexome profiling data.

Published in:

Bioinformatics, 2015, v. 31, n. 3, p. 440, doi. 10.1093/bioinformatics/btu623

By:

Giese, Heiko;
Ackermann, Jörg;
Heide, Heinrich;
Bleier, Lea;
Dröse, Stefan;
Wittig, Ilka;
Brandt, Ulrich;
Koch, Ina

Publication type:

Article

SIST: stress-induced structural transitions in superhelical DNA.

Published in:

Bioinformatics, 2015, v. 31, n. 3, p. 421, doi. 10.1093/bioinformatics/btu657

By:

Zhabinskaya, Dina;
Madden, Sally;
Benham, Craig J.

Publication type:

Article

Pareto-optimal phylogenetic tree reconciliation.

Published in:

Bioinformatics, 2014, v. 30, n. 12, p. i87, doi. 10.1093/bioinformatics/btu289

By:

Libeskind-Hadas, Ran;
Wu, Yi-Chieh;
Bansal, Mukul S.;
Kellis, Manolis

Publication type:

Article

GUILDify: a web server for phenotypic characterization of genes through biological data integration and network-based prioritization algorithms.

Published in:

2014

By:

Guney, Emre;
Garcia-Garcia, Javier;
Oliva, Baldo

Publication type:

Product Review

Graph-regularized dual Lasso for robust eQTL mapping.

Published in:

Bioinformatics, 2014, v. 30, n. 12, p. i139, doi. 10.1093/bioinformatics/btu293

By:

Cheng, Wei;
Zhang, Xiang;
Guo, Zhishan;
Shi, Yu;
Wang, Wei

Publication type:

Article

Exploring genome characteristics and sequence quality without a reference.

Published in:

Bioinformatics, 2014, v. 30, n. 9, p. 1228, doi. 10.1093/bioinformatics/btu023

By:

Simpson, Jared T.

Publication type:

Article

InterProScan 5: genome-scale protein function classification.

Published in:

Bioinformatics, 2014, v. 30, n. 9, p. 1236, doi. 10.1093/bioinformatics/btu031

By:

Jones, Philip;
Binns, David;
Chang, Hsin-Yu;
Fraser, Matthew;
Li, Weizhong;
McAnulla, Craig;
McWilliam, Hamish;
Maslen, John;
Mitchell, Alex;
Nuka, Gift;
Pesseat, Sebastien;
Quinn, Antony F.;
Sangrador-Vegas, Amaia;
Scheremetjew, Maxim;
Yong, Siew-Yit;
Lopez, Rodrigo;
Hunter, Sarah

Publication type:

Article

MolBioLib: a C++11 framework for rapid development and deployment of bioinformatics tasks.

Published in:

Bioinformatics, 2012, v. 28, n. 19, p. 2412, doi. 10.1093/bioinformatics/bts458

By:

Ohsumi, Toshiro K.;
Borowsky, Mark L.

Publication type:

Article

UniMoG—a unifying framework for genomic distance calculation and sorting based on DCJ.

Published in:

Bioinformatics, 2012, v. 28, n. 19, p. 2509, doi. 10.1093/bioinformatics/bts440

By:

Hilker, Rolf;
Sickinger, Corinna;
Pedersen, Christian N.S.;
Stoye, Jens

Publication type:

Article

GAPIT: genome association and prediction integrated tool.

Published in:

Bioinformatics, 2012, v. 28, n. 18, p. 2397, doi. 10.1093/bioinformatics/bts444

By:

Lipka, Alexander E.;
Tian, Feng;
Wang, Qishan;
Peiffer, Jason;
Li, Meng;
Bradbury, Peter J.;
Gore, Michael A.;
Buckler, Edward S.;
Zhang, Zhiwu

Publication type:

Article