This repository contains Cookiecutter-based ISA-Tab templates used at CUBI.
Example of simple usage:
from cookiecutter.main import cookiecutter
from cubi_isa_templates import TEMPLATES
isa_tpl = TEMPLATES["single_cell_rnaseq"]
extra_context = {"__output_dir": "template_dir"}
cookiecutter(
template=isa_tpl.path,
extra_context=extra_context,
output_dir="/template/path/",
no_input=True
)For proper command line usage, see cubi-tk.