Add the following Target to the Project.csproj file :
<Target Name = "Clean">
<RemoveDir Directories="$(builtdir)" />
</Target>
We will have to declare what is builtdir (which will be pointing to something like bin) and for this we will have to add
<builtdir>BuiltApp</builtdir>
and to create a new directory during build process
<MakeDir Directories = "$(builtdir)" Condition = "!Exists('$(builtdir)')" />
Now to clean use the following
msbuild <file name>.proj /target:Clean
and to build use
msbuild <file name>.proj /target:Build