ShapeMapper¶
Description¶
Mutational profiling (MaP) has become perhaps the most accurate and certainly most direct way of reading out chemical modifications in nucleic acids. ShapeMapper 2 is a completely rewritten version of our software for reading out the results of an RNA chemical probing experiment by massively parallel sequencing. ShapeMapper 2 integrates careful handling of all classes of adduct-induced sequence changes, sequence variant correction, basecall quality filters, and quality-control warnings to now identify RNA adduct sites as accurately as achieved by careful manual analysis of electrophoresis data, the prior highest-accuracy standard. ShapeMapper 2 can be used to read out SHAPE, DMS, RING, and many other classes of experiments.
Environment Modules¶
Run module spider shapemapper to find out what environment modules are available for this application.
Environment Variables¶
- HPC_SHAPEMAPPER_DIR - installation directory
- HPC_SHAPEMAPPER_BIN - executable directory
- HPC_SHAPEMAPPER_DOC - documentation directory
- HPC_SHAPEMAPPER_EXE - examples directory
Citation¶
If you publish research that uses shapemapper you have to cite it as follows:
Categories¶
biology, phylogenetics