This is an effort to provide proper useful and complete documentation on how to use the functions in the package.
Two main things have been done:
Sample data deployed with the package now comes from the lab. It is from one of the GEO submissions. This is also described in the corresponding vignette. Since this is an already published dataset, I thought it made sense to use our own as an example. I just took two ChIP samples and corresponding input and subset it to the 500Kbp region where the HOXC gene cluster is. This generates some plots that make sense, yet small enough to be able to knit the documentation quickly enough.
I wrote a full vignette on plotting and calculating values from bigWig files. This can be accessed after re-installing the package (with build_vignettes = TRUE), executing vignette("plot-bigwig").
This is an effort to provide proper useful and complete documentation on how to use the functions in the package.
Two main things have been done:
Sample data deployed with the package now comes from the lab. It is from one of the GEO submissions. This is also described in the corresponding vignette. Since this is an already published dataset, I thought it made sense to use our own as an example. I just took two ChIP samples and corresponding input and subset it to the 500Kbp region where the HOXC gene cluster is. This generates some plots that make sense, yet small enough to be able to knit the documentation quickly enough.
I wrote a full vignette on plotting and calculating values from bigWig files. This can be accessed after re-installing the package (with
build_vignettes = TRUE), executingvignette("plot-bigwig").