TrIdent - Transduction Identification

Automatic detection, classification and characterization of transduction events in transductomics datasets using read coverage pattern-matching.

Please see [Transductomics: sequencing-based detection and analysis of transduced DNA in pure cultures and microbial communities] ( https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-020-00935-5) for more information on the transductomics method, data and analysis workflow.

Details

The three main functions in TrIdent are:

1. TrIdentClassifier performs the pattern-matching, classification and characterization of read coverage patterns on contigs.

2. plotTrIdentResults plots the results from TrIdentClassifier()

3. specializedTransductionID searches contigs classified as Prophage-like by TrIdentClassifier() for potential specialized transduction

See also

Useful links:

• https://github.com/jlmaier12/TrIdent

• https://jlmaier12.github.io/TrIdent/

• Report bugs at https://github.com/jlmaier12/TrIdent/issues

Author

Jessie Maier jlmaier@ncsu.edu & Jorden Rabasco jrabasc@ncsu.edu