syntenyPlotteR

syntenyPlotteR visualizes homologous synteny blocks between genomes to support analysis of chromosome rearrangements and comparative genomics.

Key Features:

• Three core functions: Provides three dedicated functions to produce high-quality visual representations of syntenic relationships.
• Pairwise and multispecies comparisons: Supports visualization of synteny in both pairwise and multispecies comparisons.
• Homologous synteny block visualization: Displays homologous synteny blocks to reveal conserved regions between genomes.
• Chromosome-scale genome assemblies: Designed to handle chromosome-scale genome assemblies for detection of large chromosomal rearrangements.
• Publication-quality output: Generates high-quality figures intended for use in publications.

Scientific Applications:

• Chromosome evolution: Enables visualization and analysis of chromosomal rearrangements relevant to chromosome evolution studies.
• Comparative genomics: Facilitates comparison of genomic architectures across multiple species using pairwise and multispecies synteny.
• Detection of large chromosomal rearrangements: Assists in identifying large-scale structural differences between chromosome-scale assemblies.

Methodology:

Implemented in the R programming environment with three core functions to visualize homologous synteny blocks in pairwise and multispecies comparisons.