200 related articles for article (PubMed ID: 24170406)
1. Large-scale multiple sequence alignment and tree estimation using SATé.
Liu K; Warnow T
Methods Mol Biol; 2014; 1079():219-44. PubMed ID: 24170406
[TBL] [Abstract][Full Text] [Related]
2. SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees.
Liu K; Warnow TJ; Holder MT; Nelesen SM; Yu J; Stamatakis AP; Linder CR
Syst Biol; 2012 Jan; 61(1):90-106. PubMed ID: 22139466
[TBL] [Abstract][Full Text] [Related]
3. Multiple Sequence Alignment for Large Heterogeneous Datasets Using SATé, PASTA, and UPP.
Warnow T; Mirarab S
Methods Mol Biol; 2021; 2231():99-119. PubMed ID: 33289889
[TBL] [Abstract][Full Text] [Related]
4. PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences.
Mirarab S; Nguyen N; Guo S; Wang LS; Kim J; Warnow T
J Comput Biol; 2015 May; 22(5):377-86. PubMed ID: 25549288
[TBL] [Abstract][Full Text] [Related]
5. SEPP: SATé-enabled phylogenetic placement.
Mirarab S; Nguyen N; Warnow T
Pac Symp Biocomput; 2012; ():247-58. PubMed ID: 22174280
[TBL] [Abstract][Full Text] [Related]
6. Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees.
Liu K; Raghavan S; Nelesen S; Linder CR; Warnow T
Science; 2009 Jun; 324(5934):1561-4. PubMed ID: 19541996
[TBL] [Abstract][Full Text] [Related]
7. DACTAL: divide-and-conquer trees (almost) without alignments.
Nelesen S; Liu K; Wang LS; Linder CR; Warnow T
Bioinformatics; 2012 Jun; 28(12):i274-82. PubMed ID: 22689772
[TBL] [Abstract][Full Text] [Related]
8. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses.
Capella-Gutiérrez S; Silla-Martínez JM; Gabaldón T
Bioinformatics; 2009 Aug; 25(15):1972-3. PubMed ID: 19505945
[TBL] [Abstract][Full Text] [Related]
9. Accounting for alignment uncertainty in phylogenomics.
Wu M; Chatterji S; Eisen JA
PLoS One; 2012; 7(1):e30288. PubMed ID: 22272325
[TBL] [Abstract][Full Text] [Related]
10. Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?
Hartmann S; Vision TJ
BMC Evol Biol; 2008 Mar; 8():95. PubMed ID: 18366758
[TBL] [Abstract][Full Text] [Related]
11. The M-Coffee web server: a meta-method for computing multiple sequence alignments by combining alternative alignment methods.
Moretti S; Armougom F; Wallace IM; Higgins DG; Jongeneel CV; Notredame C
Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W645-8. PubMed ID: 17526519
[TBL] [Abstract][Full Text] [Related]
12. OXBench: a benchmark for evaluation of protein multiple sequence alignment accuracy.
Raghava GP; Searle SM; Audley PC; Barber JD; Barton GJ
BMC Bioinformatics; 2003 Oct; 4():47. PubMed ID: 14552658
[TBL] [Abstract][Full Text] [Related]
13. PASTASpark: multiple sequence alignment meets Big Data.
Abuín JM; Pena TF; Pichel JC
Bioinformatics; 2017 Sep; 33(18):2948-2950. PubMed ID: 28582480
[TBL] [Abstract][Full Text] [Related]
14. Using multiple sequence alignment editors and formatters.
Mount DW
Cold Spring Harb Protoc; 2009 Jul; 2009(7):pdb.top45. PubMed ID: 20147226
[TBL] [Abstract][Full Text] [Related]
15. Clustal Omega, accurate alignment of very large numbers of sequences.
Sievers F; Higgins DG
Methods Mol Biol; 2014; 1079():105-16. PubMed ID: 24170397
[TBL] [Abstract][Full Text] [Related]
16. The impact of multiple protein sequence alignment on phylogenetic estimation.
Wang LS; Leebens-Mack J; Kerr Wall P; Beckmann K; dePamphilis CW; Warnow T
IEEE/ACM Trans Comput Biol Bioinform; 2011; 8(4):1108-19. PubMed ID: 21566256
[TBL] [Abstract][Full Text] [Related]
17. MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization.
Katoh K; Rozewicki J; Yamada KD
Brief Bioinform; 2019 Jul; 20(4):1160-1166. PubMed ID: 28968734
[TBL] [Abstract][Full Text] [Related]
18. BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments.
Criscuolo A; Gribaldo S
BMC Evol Biol; 2010 Jul; 10():210. PubMed ID: 20626897
[TBL] [Abstract][Full Text] [Related]
19. Bayesian coestimation of phylogeny and sequence alignment.
Lunter G; Miklós I; Drummond A; Jensen JL; Hein J
BMC Bioinformatics; 2005 Apr; 6():83. PubMed ID: 15804354
[TBL] [Abstract][Full Text] [Related]
20. SBAL: a practical tool to generate and edit structure-based amino acid sequence alignments.
Wang CK; Broder U; Weeratunga SK; Gasser RB; Loukas A; Hofmann A
Bioinformatics; 2012 Apr; 28(7):1026-7. PubMed ID: 22332239
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]