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| author | Petar Petrov <ppetrov@paju.oulu.fi> | 2013-01-13 11:06:00 +0100 |
|---|---|---|
| committer | dsomero <xgizzmo@slackbuilds.org> | 2013-01-20 09:03:02 -0500 |
| commit | 191857cec786b4ff66e46f5c9aa7821acbe9dc92 (patch) | |
| tree | 0073d180450b509b4170afaada9aa07b055c894a /academic/mafft/References | |
| parent | 1aa1d7bb199f0462c4bd1923160ba917f3442c94 (diff) | |
| download | slackbuilds-191857cec786b4ff66e46f5c9aa7821acbe9dc92.tar.gz | |
academic/mafft: Added (multiple sequence alignment program).
Signed-off-by: Matteo Bernardini <ponce@slackbuilds.org>
Diffstat (limited to 'academic/mafft/References')
| -rw-r--r-- | academic/mafft/References | 35 |
1 files changed, 35 insertions, 0 deletions
diff --git a/academic/mafft/References b/academic/mafft/References new file mode 100644 index 0000000000..62541ce9e8 --- /dev/null +++ b/academic/mafft/References @@ -0,0 +1,35 @@ +- Katoh, Frith 2012 (Bioinformatics Advance Access) + Adding unaligned sequences into an existing alignment using MAFFT + and LAST. + (describes the --add and --addfragments options) +- Katoh, Toh 2010 (Bioinformatics 26:1899-1900) + Parallelization of the MAFFT multiple sequence alignment program. + (describes the multithread version) +- Katoh, Asimenos, Toh 2009 (Methods in Molecular Biology 537:39-64) + Multiple Alignment of DNA Sequences with MAFFT. In Bioinformatics + for DNA Sequence Analysis edited by D. Posada + (outlines DNA alignment methods and several tips including + group-to-group alignment and rough clustering of a large + number of sequences) +- Katoh, Toh 2008 (BMC Bioinformatics 9:212) + Improved accuracy of multiple ncRNA alignment by incorporating + structural information into a MAFFT-based framework. + (describes RNA structural alignment methods) +- Katoh, Toh 2008 (Briefings in Bioinformatics 9:286-298) + Recent developments in the MAFFT multiple sequence alignment + program. + (outlines version 6; Fast Breaking Paper in Thomson Reuters' + ScienceWatch) +- Katoh, Toh 2007 (Bioinformatics 23:372-374) Errata + PartTree: an algorithm to build an approximate tree from a large + number of unaligned sequences. + (describes the PartTree algorithm) +- Katoh, Kuma, Toh, Miyata 2005 (Nucleic Acids Res. 33:511-518) + MAFFT version 5: improvement in accuracy of multiple sequence + alignment. + (describes [ancestral versions of] the G-INS-i, L-INS-i and + E-INS-i strategies) +- Katoh, Misawa, Kuma, Miyata 2002 (Nucleic Acids Res. 30:3059-3066) + MAFFT: a novel method for rapid multiple sequence alignment based + on fast Fourier transform. + (describes the FFT-NS-1, FFT-NS-2 and FFT-NS-i strategies) |