Related references
Note: Only part of the references are listed.Measuring the distance between multiple sequence alignments
Benjamin P. Blackburne et al.
BIOINFORMATICS (2012)
PhyLAT: a phylogenetic local alignment tool
Hongtao Sun et al.
BIOINFORMATICS (2012)
Adding unaligned sequences into an existing alignment using MAFFT and LAST
Kazutaka Katoh et al.
BIOINFORMATICS (2012)
Accurate extension of multiple sequence alignments using a phylogeny-aware graph algorithm
Ari Loytynoja et al.
BIOINFORMATICS (2012)
The Pfam protein families database
Marco Punta et al.
NUCLEIC ACIDS RESEARCH (2012)
Aligning short reads to reference alignments and trees
Simon A. Berger et al.
BIOINFORMATICS (2011)
PicXAA-R: Efficient structural alignment of multiple RNA sequences using a greedy approach
Sayed Mohammad Ebrahim Sahraeian et al.
BMC BIOINFORMATICS (2011)
Adaptive seeds tame genomic sequence comparison
Szymon M. Kielbasa et al.
GENOME RESEARCH (2011)
Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega
Fabian Sievers et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Parallelization of the MAFFT multiple sequence alignment program
Kazutaka Katoh et al.
BIOINFORMATICS (2010)
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
Frederick A. Matsen et al.
BMC BIOINFORMATICS (2010)
An open source software package for automated extraction of ITS1 and ITS2 from fungal ITS sequences for use in high-throughput community assays and molecular ecology
R. Henrik Nilsson et al.
FUNGAL ECOLOGY (2010)
The Impact of rRNA Secondary Structure Consideration in Alignment and Tree Reconstruction: Simulated Data and a Case Study on the Phylogeny of Hexapods
Harald O. Letsch et al.
MOLECULAR BIOLOGY AND EVOLUTION (2010)
PROSITE, a protein domain database for functional characterization and annotation
Christian J. A. Sigrist et al.
NUCLEIC ACIDS RESEARCH (2010)
Phylogenetic assessment of alignments reveals neglected tree signal in gaps
Christophe Dessimoz et al.
GENOME BIOLOGY (2010)
Jalview Version 2-a multiple sequence alignment editor and analysis workbench
Andrew M. Waterhouse et al.
BIOINFORMATICS (2009)
INDELible: A Flexible Simulator of Biological Sequence Evolution
William Fletcher et al.
MOLECULAR BIOLOGY AND EVOLUTION (2009)
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
J. R. Cole et al.
NUCLEIC ACIDS RESEARCH (2009)
A fast structural multiple alignment method for long RNA sequences
Yasuo Tabei et al.
BMC BIOINFORMATICS (2008)
Improved accuracy of multiple ncRNA alignment by incorporating structural information into a MAFFT-based framework
Kazutaka Katoh et al.
BMC BIOINFORMATICS (2008)
Recent developments in the MAFFT multiple sequence alignment program
Kazutaka Katoh et al.
BRIEFINGS IN BIOINFORMATICS (2008)
PROMALS3D: a tool for multiple protein sequence and structure alignments
Jimin Pei et al.
NUCLEIC ACIDS RESEARCH (2008)
Mind the gaps: Evidence of bias in estimates of multiple sequence alignments
Tanya Golubchik et al.
MOLECULAR BIOLOGY AND EVOLUTION (2007)
ASH structure alignment package: Sensitivity and selectivity in domain classification
Daron M. Standley et al.
BMC BIOINFORMATICS (2007)
PartTree: an algorithm to build an approximate tree from a large number of unaligned sequences
Kazutaka Katoh et al.
BIOINFORMATICS (2007)
The accuracy of several multiple sequence alignment programs for proteins
Paulo A. S. Nuin et al.
BMC BIOINFORMATICS (2006)
MAFFT version 5: improvement in accuracy of multiple sequence alignment
K Katoh et al.
NUCLEIC ACIDS RESEARCH (2005)
3DCoffee: Combining protein sequences and structures within multiple sequence alignments
O O'Sullivan et al.
JOURNAL OF MOLECULAR BIOLOGY (2004)
Detecting local structural similarity in proteins by maximizing number of equivalent residues
DM Standley et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2004)
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
K Katoh et al.
NUCLEIC ACIDS RESEARCH (2002)