CircSeqAlignTk

CircSeqAlignTk analyzes RNA-Seq data derived from circular genome sequences, with a primary focus on viroids, circular RNAs typically consisting of a few hundred nucleotides.

Key Features:

• End-to-end analysis pipeline: Supports a complete workflow from alignment to visualization for circular genome sequences.
• Synthetic data generation: Includes a feature to generate synthetic sequencing data that mirrors real RNA-seq data from biological experiments.

Scientific Applications:

• Viroid infection mechanism studies: Enables analysis of viroids comprising 246–401 nucleotides circular RNAs that target plants.
• Alignment tool evaluation: Allows developers to evaluate the performance of alignment tools and new workflows.

Methodology:

The toolkit provides a series of functions spanning alignment to the visualization of circular genome sequences.