2662 days ago
Laj: viewing and manipulating the output from pairwise alignment programs
...nd repeats, and annotation links to other web sites containing additional information about particular regions. The program is written in Java in order to provide a graphical user i...2649 days ago
2647 days ago
2585 days ago
CAR: Reconstructing Contiguous Regions of an Ancestral Genome
We describe a new method for predicting the ancestral order and orientation of those intervals from their observed adjacencies in modern species. We combine the results from this m...2572 days ago
GAM-NGS: genomic assemblies merger for next generation sequencing
GAM-NGS is a tool able to merge two or more assemblies in order to improve contiguity and correctness. It can be used on all NGS-based assembly projects and it shows its full potenti...2571 days ago
GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
...f using diverse information sources. GRASS offers a mixed-integer programming formulation of the contig scaffolding problem, which combines contig order, distance and orientation in...2567 days ago
2540 days ago
LIBSVM -- A Library for Support Vector Machines
...sion 2.8, it implements an SMO-type algorithm proposed in this paper:R.-E. Fan, P.-H. Chen, and C.-J. Lin. Working set selection using second order information for training SVM....2496 days ago
Opera: An optimal genome scaffolding program
...a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_assembly ). It uses information from paired-end or long reads to optimally order and orient contigs assembled...2378 days ago