Mesquite: A modular system for evolutionary analysis
...of its modules concern population genetics, while others do non-phylogenetic multivariate analysis. Because it is modular, the analyses available depend on the modules installed....2545 days ago
Mulan: MUltiple sequence Local AligNment and conservation visualization tool
Mulan performs multiple (2 or more) sequence alignments with...(such as inversions and reshuffling) in any of the species. It combines refine&...iles for evolutionarily distant and closely related species. Input formats, automate...2543 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...ynteny blocks) and produces such sequences for ancestral genomes at the internal nodes of the phylogenetic tree. The phylogenetic tree may be also specified completely or partially...2538 days ago
2533 days ago
LIBSVM -- A Library for Support Vector Machines
...-class classification. Since version 2.8, it implements an SMO-type algorithm proposed in this paper:R.-E. Fan, P.-H. Chen, and C...classification and regression Python, R, MATLAB, Perl, Ruby, Weka, ...2530 days ago
Sequence - Evolution - Function; Computational Approaches in Comparative Genomics
...the reader with an understanding of the principles and approaches of functional genomics and of the potential and limitations of computational and experimental approaches to genome...2526 days ago
2525 days ago
orthodotter: Synteny plots (oxford grid)
...s on an oxford grid. -f <file> : input file, containing orthologous genes, default is stdin species chr-name start end species chr-name start end...2523 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...p or ∼3.2 kbp, and many gaps between contigs can be closed using paired-end placements. Practical issues with the dataset are described, and prospects for assembling larger geno...2433 days ago
QuorUM: An Error Corrector for Illumina Reads
...h changes in individual bases and trimming of unusable sequence. We developed an error correction software...asures how successful we are at achieving this dual goal. We evaluate the performance of QuorUM by correct...2432 days ago