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Update tutorials #79

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2bb067e
Update getting started tutorial
sebapersson May 20, 2026
d82c48f
Update how-to tutorials
sebapersson May 20, 2026
714fc6c
Update tutorials
sebapersson May 21, 2026
d4eb91e
Apply suggestions from code review
sebapersson May 25, 2026
ec98f9a
Merge branch 'main' into update_tutorials
sebapersson May 25, 2026
77c9dd2
Apply suggestions from code-review
sebapersson May 25, 2026
512b5ce
Improve language in tutorials
sebapersson May 25, 2026
ca397b0
Update doc/examples/how_to_dmms/how_to_dmms.ipynb
sebapersson May 26, 2026
2c39338
Merge branch 'main' into update_tutorials
sebapersson May 26, 2026
5faa1ba
Merge branch 'update_tutorials' of https://github.com/PEtab-dev/petab…
sebapersson May 26, 2026
42a191c
Add images of hybridization patterns
sebapersson Jun 1, 2026
7142f1b
Fix broken link
sebapersson Jun 1, 2026
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407 changes: 246 additions & 161 deletions doc/examples/getting_started/getting_started.ipynb
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6 changes: 3 additions & 3 deletions doc/examples/getting_started/requirements.txt
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Original file line number Diff line number Diff line change
Expand Up @@ -17,7 +17,7 @@ bleach==6.2.0
certifi==2025.8.3
cffi==2.0.0
charset-normalizer==3.4.3
chex==0.1.91
chex==0.1.90
cmake==4.1.0
cmake-build-extension==0.6.0
colorama==0.4.6
Expand Down Expand Up @@ -97,15 +97,15 @@ notebook==7.4.5
notebook_shim==0.2.4
numpy==2.2.3
opt_einsum==3.4.0
optax==0.2.6
optax==0.2.5
optimistix==0.0.10
oyaml==1.0
packaging==25.0
pandas==2.3.2
pandocfilters==1.5.1
parso==0.8.5
petab @ git+https://github.com/petab-dev/libpetab-python.git@99373c4340512def5a23bf2a75805c3f88251251
petab_sciml @ git+https://github.com/PEtab-dev/petab_sciml.git@80af726a3c2e430a068ea1ebf567f77c072fd85f#subdirectory=src/python
petab_sciml @ git+https://github.com/PEtab-dev/petab_sciml.git@main
pexpect==4.9.0
pillow==11.3.0
Pint==0.25
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