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chore: stop tracking CLAUDE.md Build and deploy docs #56: Commit e9c3c61 pushed by vuqv
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chore(utils): remove outdated crop_ribosome and ctf_utils Build and deploy docs #55: Commit d5f9ad3 pushed by vuqv
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Graph Update: pip in /. #1450366177 Dependency Graph #5: by dependabot Bot
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feat(csp): port fastest/slowest synonymous-codon mRNA + dwell-time li… Build and deploy docs #54: Commit 9daab8e pushed by vuqv
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Graph Update: pip in /. #1448000032 Dependency Graph #4: by dependabot Bot
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refactor(csp)+docs: require peptide_nm; drop single-bead ribosome + p… Build and deploy docs #53: Commit add52d2 pushed by vuqv
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Graph Update: pip in /. #1447986658 Dependency Graph #3: by dependabot Bot
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docs: comprehensive revision after translation retirement + csp changes Build and deploy docs #52: Commit c975f32 pushed by vuqv
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Graph Update: pip in /. #1447676938 Dependency Graph #2: by dependabot Bot
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docs(csp): surface ribosome prep + explicit-vs-cylinder routing Build and deploy docs #51: Commit 6756851 pushed by vuqv
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refactor to align with topo design Build and deploy docs #50: Commit 9e6c7ee pushed by vuqv
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revise docs Build and deploy docs #49: Commit 357608e pushed by vuqv
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Graph Update: pip in /., /docs #1437635413 Dependency Graph #1: by dependabot Bot
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done revision Build and deploy docs #48: Commit 4abab0c pushed by vuqv
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Fix Issue #11: convert eps_di parameters from kcal/mol to kj/mol and … Build and deploy docs #47: Commit 53ec993 pushed by vuqv
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Add OpenMM 8.2-compatible nascent chain growth script: implement iter… Build and deploy docs #46: Commit d093110 pushed by vuqv
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Add nascent chain growth script: implement iterative amino acid addit… Build and deploy docs #45: Commit 2cadfcb pushed by vuqv
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Update .gitignore to exclude .DS_Store files: added entry for macOS s… Build and deploy docs #44: Commit d475364 pushed by vuqv
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Refactor ribosome PDB cropping utility: implemented new function for … Build and deploy docs #43: Commit a32441f pushed by vuqv
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Add filter_pdb utility and update README: included new function for c… Build and deploy docs #42: Commit 05aa88d pushed by vuqv
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Refactor simulation parameter output: improved readability of simulat… Build and deploy docs #41: Commit 2113577 pushed by vuqv
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Update README and documentation: revised model support details for `h… Build and deploy docs #40: Commit 1f3bd4c pushed by vuqv
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Update documentation for coarse-grained model: revised terminology to… Build and deploy docs #39: Commit 17a357c pushed by vuqv
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Enhance coarse-grained model to support RNA: updated methods to retai… Build and deploy docs #38: Commit ae7c428 pushed by vuqv
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Update documentation and code references to reflect the transition fr… Build and deploy docs #37: Commit 77a8a30 pushed by vuqv
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