Mulan: MUltiple sequence Local AligNment and conservation visualization tool
...ished" quality sequences. Mulan provides a dynamic graphical interface to align and visualize conservation profiles for evolutionarily distant and closely related species. Input fo...2540 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...insertion and deletions in addition to genome rearrangements and allows the input genomes to have different gene content. It also can reconstruct most plausible phylogenetic tree...2535 days ago
Web Apollo: a web-based genomic annotation editing platform
...me or Firefox) to jointly analyze and precisely describe the features of a genome in real time, whether they are in the same room or working from opposite sides of the world.2532 days ago
LIBSVM -- A Library for Support Vector Machines
...ion 2.8, it implements an SMO-type algorithm proposed in this paper:R.-E. Fan, P....lations Efficient multi-class classification Cross validation for model selecti...model selection which can generate contour of cross validation accuracy. ht...2527 days ago
orthodotter: Synteny plots (oxford grid)
...-bg : background color, default is transparent -fSize <int> : fontSize, default is 1 -filter : check chromosome names -h...2520 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...obases and in scaffolds longer than 269 kilobases. Incorporating fosmid ends recovers entire chromosomes. Meraculous relies on an...im;280 bp or ∼3.2 kbp, and many gaps between contigs can be closed using paired-end placements...2430 days ago
QuorUM: An Error Corrector for Illumina Reads
...verage of a genome by relatively short (most often 100 bp to 150 bp) reads at a low cost. Even with low (advertised 1...ugh information in the reads to correct most of the sequencing errors, th...in the output reads and preserving the most true k-mers, and we int...2428 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
...s-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. For the best possible assemblies, give it both...2427 days ago
2423 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
...w tools in the future. Availability and Implementation The software is implemented in Python 3 and runs in both Python 2.7 and 3.4– on Macintosh and Linux systems. It is fre...2423 days ago