Astatistical theory of local alignmentalgorithms with gaps is presented. Both the linear and logarithmic phases, as well as the phase transition separating the two phases, are des...
Background: Homology is a crucial concept in comparative genomics. The algorithm probably most widely used for homology detection in comparative genomics, is BLAST. Usually a stri...
Like Fokkens, Sandra M. C. Botelho, Jos Boekhorst,...
Background: Many algorithms exist for protein structural alignment, based on internal protein coordinates or on explicit superposition of the structures. These methods are usually...
Background: Protein structure analysis and comparison are major challenges in structural bioinformatics. Despite the existence of many tools and algorithms, very few of them have ...
Background: Confidence in pairwise alignments of biological sequences, obtained by various methods such as Blast or Smith-Waterman, is critical for automatic analyses of genomic d...