CUBI ISA-Tab Templates

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.