2925 days ago
SATSUMA : Highly sensitive whole-genome synteny alignments.
...ome synteny alignment program. It takes two genomes, computes alignments, and then keeps only the parts that are orthologous, i.e. following the conserved order and orientation of feat...2922 days ago
2882 days ago
Method in Comparative genomics !!
...known motifs, we developed three conservation criteria that we used to discover novel motifs. We used an enumeration approach to select strongly conserved motif cores, which we extende...2742 days ago
2699 days ago
DAGchainer: Computing Chains of Syntenic Genes in Complete Genomes
...etween homologs, maximally scoring chains of ordered gene pairs are computed and reported. This algorithm can be used to mine large evolutionary conserved regions of genomes between tw...2642 days ago
gbtools: Interactive Visualization of Metagenome Bins in R
...alues of contigs, and also to annotate the plots with taxonomic information. Different sets of annotations, including taxonomic assignments from conserved marker genes or SSU rRNA gene...2605 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...al nodes of the phylogenetic tree. The phylogenetic tree may be also specified completely or partially, in the latter case MGRA can reconstruct conserved ancestral regions (CARs) of t...2484 days ago
ACANA: An accurate and consistent alignment tool for DNA sequences
...cally designed for aligning sequences that share only some moderately conserved regions and/or have a high fr...particularly useful in comparative sequence analysis for identifying conserved functional regulatory element...2350 days ago
zPicture: A dynamic blastz alignment visualization
zPicture is a dynamic alignment and visualization tool that is based on blastz alignment program utilized by PipMaker. zPicture alignments can be automatically submitted to rVista 2.0 to identify conserved transcription factor binding sites.2295 days ago