Short Answer
Please use skip_hidden_row_and_column=True as in pyexcel-xlsx test code:
p.save_book_as(file_name='Source.xlsx',
library='pyexcel-xlsx', # <--- note 1
skip_hidden_row_and_column=True, # <--- note 2
dest_file_name='Destination.xls')
To get pyexcel-xlsx, you can use pip:
pip install pyexcel-xlsx
Explanation/Long Answer
pyexcel-xls(xlrd) does not support hidden rows for xlsx format but xls. That's why note 1 ask pyexcel to use pyexcel-xlsx to read the xlsx file instead.
And this flag was noted in pyexcel-xlsx README, True means to ignore hidden rows.
Why library? It is specific for save_as, save_book_as, isave_as and isave_book_as. In these functions, a reader and a writer were involved to finish the function. library tells pyexcel to use a specific library to read a file whereas dest_library tells pyexcel to write a file.
These have been documented, for example save_as and please find library in the page.