2114 days ago
KAST: Perform Alignment-free k-tuple frequency comparisons from sequences
Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.2114 days ago
S-plot2: creates an interactive, two-dimensional heatmap of sequences
...ilitates the investigation of quickly evolving coding regions, novel coding regions, and laterally transferred elements. http://www.putonti-lab.com/uploads/4/5/3/0/45307835/s-plot2...2106 days ago
MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies
...ed Java program for genome-wide forward simulations of evolving populations. MimicrEE2 enables the convenient usage of available genomic resources, supports biological particulars o...2106 days ago
2100 days ago
Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads
...ote calling like strategy to divide potential groups into haplotypes in a top&nda...ratively merges sibling leaves in a bottom–up manner if they are similar en...ssembly results. Based on simulation and a real guppy RAD-seq data, we show that...2085 days ago
CSBFinder: Discovery of colinear syntenic blocks across thousands of prokaryotic genomes
...e. CSBFinder implements a novel methodology for the discovery, ranking, and taxonomic distribution analysis of colinear syntenic blocks (CSBs) - groups of genes that are consistent...2079 days ago
2079 days ago
Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data
...ves both high sensitivity and high specificity. Platypus can detect SNPs, MNPs, short indels, replacements and (using the assembly option) deletions up to several kb. It has been ex...2079 days ago
QUAST-LG: Versatile genome assembly evaluation
...trics. Since genomes generally cannot be reconstructed completely due to complex repeat patterns and low coverage regions, we introduce a concept of upper bound assembly for a given...2079 days ago