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Comparative Genomics
»
Pan/Core-Genome
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of MicroScope's functionalities
This interface provides an analysis of the pan-genome and its components (core-genome, variable-genome) for an organism set. It use the MicroScope gene families (MICFAM) which are computed with the SiLiX software (
« Ultra-fast sequence clustering from similarity networks with SiLiX. », Miele V
et al.
, 2011
).
It allows the users to:
Compute pan-genome and core-genome sizes and their evolutions for a genome set
Determine the common and variable genome proportion for each genome
Exclude the pan, core and variable-genome of another genome set to the analysis
Extract core-genome, variable-genome and strain specific sequences and annotations.
Pan-genome Analysis
1. Manage your Organism selection
Analyze a set in these available genomes
Exclude the
pan-genome
core-genome
variable-genome
of selected organisms
Do not display boxplots (faster)
MICFAM parameter:
80% aa identity / 80% align. coverage
50% aa identity / 80% align. coverage
2. Submit your Query
VIEW