ecgpuwave.m, here, is a matlab wrapper that calls an executable. there is additional info about ecgpuwave.m here. The executable must be compiled from Fortran code available here. At the last link, go to subdirectory INSTALL for further instructions.
You said your ecg data is not annotated. The help for ecgpuwave.m says
If ECGPUWAVE is used without providing an annotator file for the R peaks it relies on a Pan-Tompkins detector. This detector may not be optimized for your particular signal, and thus may need to be tuned, yielding anempty annotation file. In this case, you may want to first run a QRS detector to generate an appropriate QRS annotation file, which you can then check manually prior to calling ECGPUWAVE with the 'qrsAnn' option described below.
If you don't want to download and use the gnu Fortran compliler, then try the following alternative set of matlab functions here. It is described here. The description includes the following: "This MATLAB m-code software in this directory (see links near the end of this page) reimplements the algorithms used by the Fortran version of ecgpuwave for detecting the onsets, peaks, and ends of P, QRS, and T waves in the ECG. The main function is limits.m." The description also says the following, which is relevant to you: "If no annotation file is supplied, limits.mattempts to use basicECG.m and qrsdet.m to detect the QRS complexes, but these files have not been contributed by their authors and are not available here, so this attempt will fail unless you have obtained or reimplemented these functions. PhysioToolkit includes several QRS detectors that can generate an annotation file if necessary; these include gqrs, sqrs, and wqrs (all written in C and included in the WFDB Software Package), as well as the original Fortran version of ecgpuwave, which includes its own QRS detector."
Attach a physionet record file containing ecg data, if you want further assistance.
Good luck with your research.
