LICENSE
MANIFEST.in
README.md
pyproject.toml
pyfurnace/__init__.py
pyfurnace/__main__.py
pyfurnace.egg-info/PKG-INFO
pyfurnace.egg-info/SOURCES.txt
pyfurnace.egg-info/dependency_links.txt
pyfurnace.egg-info/entry_points.txt
pyfurnace.egg-info/requires.txt
pyfurnace.egg-info/top_level.txt
pyfurnace/__pycache__/__init__.cpython-312.pyc
pyfurnace/app/__init__.py
pyfurnace/app/streamlit_app.py
pyfurnace/app/pages/0_Home.py
pyfurnace/app/pages/1_Design.py
pyfurnace/app/pages/2_Generate.py
pyfurnace/app/pages/3_Convert.py
pyfurnace/app/pages/4_Prepare.py
pyfurnace/app/pages/__init__.py
pyfurnace/app/static/logo.png
pyfurnace/app/static/logo_text.png
pyfurnace/app/static/pyfurnace.svg
pyfurnace/app/utils/__init__.py
pyfurnace/app/utils/design_functions.py
pyfurnace/app/utils/motifs_icons.py
pyfurnace/app/utils/st_fixed_container.py
pyfurnace/app/utils/template_functions.py
pyfurnace/app/utils/commands/__init__.py
pyfurnace/app/utils/commands/aptamers_command.py
pyfurnace/app/utils/commands/connections_command.py
pyfurnace/app/utils/commands/dovetail_command.py
pyfurnace/app/utils/commands/general_edit_command.py
pyfurnace/app/utils/commands/kissing_loops_command.py
pyfurnace/app/utils/commands/motif_command.py
pyfurnace/app/utils/commands/stem_command.py
pyfurnace/app/utils/commands/structural_command.py
pyfurnace/app/utils/commands/tetraloop_command.py
pyfurnace/design/__init__.py
pyfurnace/design/__pycache__/__init__.cpython-312.pyc
pyfurnace/design/core/__init__.py
pyfurnace/design/core/basepair.py
pyfurnace/design/core/callback.py
pyfurnace/design/core/coordinates_3d.py
pyfurnace/design/core/motif.py
pyfurnace/design/core/origami.py
pyfurnace/design/core/position.py
pyfurnace/design/core/sequence.py
pyfurnace/design/core/strand.py
pyfurnace/design/core/symbols.py
pyfurnace/design/core/__pycache__/__init__.cpython-312.pyc
pyfurnace/design/core/__pycache__/basepair.cpython-312.pyc
pyfurnace/design/core/__pycache__/callback.cpython-312.pyc
pyfurnace/design/core/__pycache__/coordinates_3d.cpython-312.pyc
pyfurnace/design/core/__pycache__/motif.cpython-312.pyc
pyfurnace/design/core/__pycache__/origami.cpython-312.pyc
pyfurnace/design/core/__pycache__/position.cpython-312.pyc
pyfurnace/design/core/__pycache__/sequence.cpython-312.pyc
pyfurnace/design/core/__pycache__/strand.cpython-312.pyc
pyfurnace/design/core/__pycache__/symbols.cpython-312.pyc
pyfurnace/design/motifs/__init__.py
pyfurnace/design/motifs/aptamers.py
pyfurnace/design/motifs/dovetail.py
pyfurnace/design/motifs/kissing_loops.py
pyfurnace/design/motifs/loops.py
pyfurnace/design/motifs/stem.py
pyfurnace/design/motifs/structural.py
pyfurnace/design/motifs/__pycache__/__init__.cpython-312.pyc
pyfurnace/design/motifs/__pycache__/aptamers.cpython-312.pyc
pyfurnace/design/motifs/__pycache__/dovetail.cpython-312.pyc
pyfurnace/design/motifs/__pycache__/kissing_loops.cpython-312.pyc
pyfurnace/design/motifs/__pycache__/loops.cpython-312.pyc
pyfurnace/design/motifs/__pycache__/stem.cpython-312.pyc
pyfurnace/design/motifs/__pycache__/structural.cpython-312.pyc
pyfurnace/design/motifs/conf_files/Bend90.dat
pyfurnace/design/motifs/conf_files/Bend90_2.dat
pyfurnace/design/motifs/conf_files/Biotin.dat
pyfurnace/design/motifs/conf_files/BranchedKissingLoop.dat
pyfurnace/design/motifs/conf_files/BranchedKissingLoop_1.dat
pyfurnace/design/motifs/conf_files/BranchedKissingLoop_2.dat
pyfurnace/design/motifs/conf_files/BranchedKissingLoop_3.dat
pyfurnace/design/motifs/conf_files/Broccoli_1.dat
pyfurnace/design/motifs/conf_files/Broccoli_2.dat
pyfurnace/design/motifs/conf_files/Ispinach_1.dat
pyfurnace/design/motifs/conf_files/Ispinach_2.dat
pyfurnace/design/motifs/conf_files/KissingLoop120.dat
pyfurnace/design/motifs/conf_files/KissingLoop120_2.dat
pyfurnace/design/motifs/conf_files/KissingLoop180.dat
pyfurnace/design/motifs/conf_files/KissingLoop180_2.dat
pyfurnace/design/motifs/conf_files/L7Ae_1.dat
pyfurnace/design/motifs/conf_files/L7Ae_2.dat
pyfurnace/design/motifs/conf_files/L7Ae_2.top
pyfurnace/design/motifs/conf_files/LambdaTurn_1.dat
pyfurnace/design/motifs/conf_files/LambdaTurn_2.dat
pyfurnace/design/motifs/conf_files/MS2.dat
pyfurnace/design/motifs/conf_files/MS2.top
pyfurnace/design/motifs/conf_files/MalachiteGreen.dat
pyfurnace/design/motifs/conf_files/MalachiteGreenShort_1.dat
pyfurnace/design/motifs/conf_files/MalachiteGreenShort_2.dat
pyfurnace/design/motifs/conf_files/Mango.dat
pyfurnace/design/motifs/conf_files/PP7.dat
pyfurnace/design/motifs/conf_files/PP7.top
pyfurnace/design/motifs/conf_files/Pepper_1.dat
pyfurnace/design/motifs/conf_files/Pepper_2.dat
pyfurnace/design/motifs/conf_files/Pip3.dat
pyfurnace/design/motifs/conf_files/Pip3_mut1.dat
pyfurnace/design/motifs/conf_files/Pip3_mut3.dat
pyfurnace/design/motifs/conf_files/Pip3_mut5.dat
pyfurnace/design/motifs/conf_files/Streptavidin.dat
pyfurnace/design/motifs/conf_files/TAR_TAT.dat
pyfurnace/design/motifs/conf_files/TAR_TAT.top
pyfurnace/design/motifs/conf_files/TetraLoop.dat
pyfurnace/design/motifs/conf_files/ThreeWayJunction_1.dat
pyfurnace/design/motifs/conf_files/ThreeWayJunction_2.dat
pyfurnace/design/motifs/conf_files/ThreeWayJunction_3.dat
pyfurnace/design/motifs/conf_files/Thrombin_exosite1.dat
pyfurnace/design/motifs/conf_files/Thrombin_exosite2.dat
pyfurnace/design/motifs/conf_files/Thrombin_exosite2.top
pyfurnace/design/utils/__init__.py
pyfurnace/design/utils/motif_lib.py
pyfurnace/design/utils/origami_lib.py
pyfurnace/design/utils/__pycache__/__init__.cpython-312.pyc
pyfurnace/design/utils/__pycache__/motif_lib.cpython-312.pyc
pyfurnace/design/utils/__pycache__/origami_lib.cpython-312.pyc
pyfurnace/generate/__init__.py
pyfurnace/generate/pk_utils.py
pyfurnace/generate/road.py
pyfurnace/generate/utils.py
pyfurnace/generate/viennarna.py
pyfurnace/generate/road_bin/revolvr.pl
pyfurnace/generate/road_bin/viennarna_funcs.py
pyfurnace/prepare/__init__.py
pyfurnace/prepare/oxdna_sim.py
pyfurnace/prepare/utils.py
pyfurnace/prepare/oxdna_inputs/MC_relax.txt
pyfurnace/prepare/oxdna_inputs/MD_equil.txt
pyfurnace/prepare/oxdna_inputs/MD_prod.txt
pyfurnace/prepare/oxdna_inputs/MD_relax.txt
tests/test_motif.py
tests/test_origami.py
tests/test_strand.py