bioinformatics, alignment-free sequence analysis approaches to molecular sequence and structure data provide alternatives over alignment-based approaches...

In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence...

alignments are used to infer evolutionary relationships via phylogenetic analysis and can highlight homologous features between sequences. Alignments...

that provide the sequence comparisons (sequence alignment) and analyze the alignment product to understand its biology. Sequence analysis in molecular biology...

specialized on: Sequence analysis software List of sequence alignment software List of alignment visualization software Alignment-free sequence analysis De novo...

of sequence alignment software is a compilation of software tools and web portals used in pairwise sequence alignment and multiple sequence alignment. See...

This page is a subsection of the list of sequence alignment software. Multiple alignment visualization tools typically serve four purposes: Aid general...

manipulations of the information profiles enable the analysis of the sequences using alignment-free techniques, such as for example in motif and rearrangements...

Sequence Alignment Map (SAM) is a text-based format originally for storing biological sequences aligned to a reference sequence developed by Heng Li and...

a valid derivation using an automaton. Parse Tree: The alignment of the grammar to a sequence. An example of a parser for PCFG grammars is the pushdown...

HMMER is a free and commonly used software package for sequence analysis written by Sean Eddy. Its general usage is to identify homologous protein or...

acid sequences converge on a common tertiary structure. Structural alignments can compare two sequences or multiple sequences. Because these alignments rely...

mining Molecular evolution Comparative anatomy Homology Sequence mining Alignment-free sequence analysis Darling AE, Miklós I, Ragan MA (July 2008). "Dynamics...

the actual sequence is represented. Sequences may be protein sequences or nucleic acid sequences, and they can contain gaps or alignment characters (see...

studies. Tools like BLAT (BLAST-like alignment tool) and LiftOver were introduced to enhance sequence alignment and coordinate conversion between different...

RNA-Seq analysis involves alignment of the sequenced reads to a reference genome (if available) or to a transcriptome database. See also List of sequence alignment...

performs local sequence alignment; that is, for determining similar regions between two strings of nucleic acid sequences or protein sequences. Instead of...

local alignment search tool) is an algorithm and program for comparing primary biological sequence information, such as the amino-acid sequences of proteins...

M, Barton GJ (May 2009). "Jalview Version 2--a multiple sequence alignment editor and analysis workbench". Bioinformatics. 25 (9): 1189–1191. doi:10...

areas of the life sciences. This includes visualization of sequences, genomes, alignments, phylogenies, macromolecular structures, systems biology, microscopy...

sequence analysis (SA) is concerned with the analysis of sets of categorical sequences that typically describe longitudinal data. Analyzed sequences are...

important method in alignment-free sequence analysis. It can also be used as a first stage analysis before an alignment. In sequence assembly, k-mers are...

Clustal is a computer program used for multiple sequence alignment in bioinformatics. The software and its algorithms have gone through several iterations...

then obtain the local alignment. Multiple sequence alignment is an extension of pairwise alignment to align several sequences at a time. Different MSA...

to analyze various biological genetics data, such as sequences, annotations, multiple alignments, phylogenetic trees, NGS assemblies, and others. The...

visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results...

related genomes is similar. Gene signature mutational signatures Alignment-free sequence analysis Bioinformatics Computational genomics K-mer Phylogenomics Kariin...

deduced amino acid sequence can be saved in various formats and searched against the sequence database using the basic local alignment search tool (BLAST)...

In the field of artificial intelligence (AI), alignment aims to steer AI systems toward a person's or group's intended goals, preferences, or ethical...

applications for sequence alignment, rapid database searching with sequence patterns, protein motif identification (including domain analysis), and much more...