Circoletto: visualizing sequence similarity with Circos
Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and informative overview of sequence similarity search results. Online version a...2319 days ago
kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity
...are implements a de novo, alignment free measure of sample genetic dissimilarity which operates upon raw sequencing reads. It is able to calculate the genetic dissimilarity between samples without any r...2210 days ago
2216 days ago
REVIGO: Reduced Visualize gene ontology
...can take long lists of Gene Ontology terms and summarize them by removing redundant GO terms. The remaining terms can be visualized in semantic similarity-based scatterplots, interacti...2147 days ago
GenomeThreader: Gene Prediction Software
GenomeThreader is a software tool to compute gene structure predictions. The gene structure predictions are calculated using a similarity-based approach where additional cDNA/EST a...2083 days ago
Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads
...ash;down manner. And along a guided tree, it iteratively merges sibling leaves in a bottom–up manner if they are similar enough. Here, the similarity is defined by comparing the 2...2067 days ago
CSBFinder: Discovery of colinear syntenic blocks across thousands of prokaryotic genomes
...ge genomic datasets. The discovered CSBs are ranked according to a probabilistic score and clustered to families according to their gene content similarity.2062 days ago
BLAST options, setting and defaults
...al. (1997). It is a very fast search algorithm that is used to separately search protein or DNA databases. BLAST is best used for sequence similarity searching, rather than for mo...2015 days ago
OrthoANI: An improved algorithm and software for calculating average nucleotide identity
OAT uses OrthoANI to measure the overall similarity between two genome sequences. ANI and OrthoANI are comparable algorithms: they share the same species demarcation cut-off at 95~96% a...2013 days ago
SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
...based on single transitive links (single linkage) with alignment coverage constraints. SiLiX adopts a graph-theoretical framework to interpret similarity pairs as edges of a network....2013 days ago