![]() Ideally, as mentioned previouly, MUSCLE and DSSP should installed on your system and be in the search path for executables. ncdf is only required for reading/writing netcdf binary trajectory files igraph for visualization of correlation network analysis RCurl and XML for searching and fetching data from various biomolecular databases.Ī Note on Calling External Programs from R/Bio3D ![]() Note: If you encounter difficulties in installing any of the suggested packages, note that most functions in Bio3D will work just fine without. ![]() In addition, for full Bio3D functionality you should have MUSCLE and DSSP installed on your system and in the search path for executables. i.e. the R package ncdf requires netcdf and libnetcdf-dev XML requires libxml2-dev and RCurl requires libcurl3-dev. Make sure required headers and libraries are installed on your system prior to installing these R packages. īio3D makes use of a number of additional R packages including ncdf, bigmemory, XML, RCurl and igraph. Detailed instructions for obtaining and installing R on various platforms can be found on the R home page. ![]() Before you attempt to install Bio3D you should have a relatively recent version of R installed and working on your system (we recommend at least R version 3.1.0).
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