Hi All After taking an exciting BioC course at FredHutch recently, I am trying to dive into BioC world to make more sense of NGS data. I would also like to thank the entire BioC team present there. You guys were simply great. I appreciate you all patiently answering tons of questions and taught some of the cool things we can do with BioC packages.
For my current problem I would like to generate coverage plots for a small bacterial genome. I have the reads imported as a AlignedRead object and I am not sure how to proceed next. The help for the "coverage" method didn't get me very far. I am looking for some pointers to help me resolve the following questions. 1. How to create a RLE list from the AlignRead object using coverage method ? 2. Do I need to pack my reference genome as BSgenome data package in order to do this ? If yes I just have the sequence and no group II mask file. 3. Finally how to plot a RLE list. Thanks! -Abhi _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
