Package: iimi 1.2.2

1. Introduction | 1.1. Installation | 1.2. Loading packages and data | 1.3. Data Pre-processing | 2. Converting BAM file(s) into coverage profiles and feature-extracted data frame | 2.1. State the path to the folder of your BAM files | 2.2. Create a data frame that contains the coverage profiles. | 2.2.1. Convert BAM files to a list of RLEs. | 2.2.2. Convert the list of RLEs to a feature-extracted data frame. | 3. Predicting the plant sample(s) | 3.1 Using pre-trained models and no customization | 3.2. Customizing your own model | 3.3. Customizing unreliable regions | 3.3.1. Mappability profile | 3.3.2. High nucleotide content regions | 4. Visualizing the coverage profiles | 5. References