MULTIPLE COLLINEARITY SCAN - MCSCAN
MCScanX-transposed is a software package able to detect transposed gene duplications that occurred within different epochs based on applying MCScanX within and between related genomes, also useful for integrative analysis of gene duplication modes and annotating a gene family of interest with gene duplication modes.
MCScan is an algorithm to scan multiple genomes or subgenomes to identify putative homologous chromosomal regions, then align these regions using genes as anchors. MCScanXtoolkit implements an adjusted MCScan algorithm for detection of synteny and collinearity and extends the software by incorporating 15 utility programs for display and further analyses. Compared with MCScan version 0.8, MCScanX has the following new features:
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