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Title: GitHub - mach3-software/MaCh3Tutorial: Tutorial how to use MaCh3

Open Graph Title: GitHub - mach3-software/MaCh3Tutorial: Tutorial how to use MaCh3

X Title: GitHub - mach3-software/MaCh3Tutorial: Tutorial how to use MaCh3

Description: Tutorial how to use MaCh3. Contribute to mach3-software/MaCh3Tutorial development by creating an account on GitHub.

Open Graph Description: Tutorial how to use MaCh3. Contribute to mach3-software/MaCh3Tutorial development by creating an account on GitHub.

X Description: Tutorial how to use MaCh3. Contribute to mach3-software/MaCh3Tutorial development by creating an account on GitHub.

Mail addresses
Kamil.Skwarczynski@rhul.ac.uk

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MCMC Diagnostichttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#mcmc-diagnostic
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Useful Settingshttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#useful-settings
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https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#how-to-start
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herehttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#how-to-run-mcmc
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herehttps://github.com/mach3-software/MaCh3/wiki/09.-Bayesian-Analysis,-Plotting-and-MCMC-Processor
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#plotting-mcmc-posteriors
https://private-user-images.githubusercontent.com/45295406/388327716-27e3e4c8-629e-4c05-ac64-f6a7bec85331.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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._83XyZ0b5KxfFIP4nI18WFwhAUKOzXWsuPRKUzjyN8I
https://private-user-images.githubusercontent.com/45295406/524399359-617f5929-b389-495e-ab7b-2ecd6c2d991e.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.JXrUlxNTk5zSPpT2iLzja31gSbSzeMfLhWbgfmsk9qo
https://private-user-images.githubusercontent.com/45295406/524400240-4788ab29-f24a-4b09-8b0f-c9b36d069cfe.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.eyJpc3MiOiJnaXRodWIuY29tIiwiYXVkIjoicmF3LmdpdGh1YnVzZXJjb250ZW50LmNvbSIsImtleSI6ImtleTUiLCJleHAiOjE3NzEyMDg1ODUsIm5iZiI6MTc3MTIwODI4NSwicGF0aCI6Ii80NTI5NTQwNi81MjQ0MDAyNDAtNDc4OGFiMjktZjI0YS00YjA5LThiMGYtYzliMzZkMDY5Y2ZlLnBuZz9YLUFtei1BbGdvcml0aG09QVdTNC1ITUFDLVNIQTI1NiZYLUFtei1DcmVkZW50aWFsPUFLSUFWQ09EWUxTQTUzUFFLNFpBJTJGMjAyNjAyMTYlMkZ1cy1lYXN0LTElMkZzMyUyRmF3czRfcmVxdWVzdCZYLUFtei1EYXRlPTIwMjYwMjE2VDAyMTgwNVomWC1BbXotRXhwaXJlcz0zMDAmWC1BbXotU2lnbmF0dXJlPTI5ZDdkMjNkZjA2ODc4NzllMDMyODZmNzlkYzA1YmY2ZDM5ZGQwNDQxYTkwNTQ3Nzk1OTFkNWJmNWU0OGIyYTUmWC1BbXotU2lnbmVkSGVhZGVycz1ob3N0In0.GoU2Sz4EFXr5dwkNG4z3RCujddK2dXtj572jL3REEes
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#plotting-correlation-matrix
https://private-user-images.githubusercontent.com/45295406/448072479-14471069-27e7-4ea3-9d75-232615aa246a.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.9m_ROEjRTerWqLTKpkqYTxUaDYqHV2wZuD5UrsSM52Q
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#posterior-predictive-analysis
https://private-user-images.githubusercontent.com/45295406/520161856-d7b70e6d-0802-4816-89ee-6d11ee89047b.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.-2DgZo4dQ-Ry-46RuGCaMnItz0cqo2bGvAilZJDqdjA
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#plotting-posterior-predictive-distributions
https://private-user-images.githubusercontent.com/45295406/520162172-1f9bad86-4b53-453a-919f-4b837495b60c.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.Uz3ZOvU8cw24cIaL3eVyxwMSxO4xxpe4r7ZUyAGyeJI
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#prior-predictive-distributions
https://private-user-images.githubusercontent.com/45295406/520162357-5308f707-04aa-4c57-bf59-5d000d535463.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.Hp7_sXhZjCz38S3ePvrdmDZy0m0fS4KHOpATh2nsr3Y
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#how-to-develop-a-model-of-systematic-uncertainties
herehttps://github.com/mach3-software/MaCh3/wiki/02.-Implementation-of-Systematic
herehttps://github.com/mach3-software/MaCh3/wiki/01.-Manager-and-config-handling
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#how-to-compare-chains
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#holding-parameters-fixed
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#how-to-develop-new-samples
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#modifying-analysis-samples
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#adding-a-new-sample
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#changing-oscillation-engine
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#atmospheric-sample
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#plotting-kinematic-distribution
https://private-user-images.githubusercontent.com/45295406/415654037-534bcb17-f26c-4fc2-a77a-5d253b0ed241.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.mIGxzpP1KGQesF2XDmVVJbbGPmNwHTPl_5Eb8EqAi0A
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#more-advanced-development
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#mcmc-diagnostic
herehttps://github.com/mach3-software/MaCh3/wiki/11.-Step-size-tuning
https://private-user-images.githubusercontent.com/45295406/389416767-e146698c-713c-4daf-90df-adeb3051539b.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.o5tSsGLqLvebZcdc_7LW4Pm44w44outXnb78sXqXp4M
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#running-multiple-chains
herehttps://mc-stan.org/docs/2_18/reference-manual/notation-for-samples-chains-and-draws.html
https://private-user-images.githubusercontent.com/45295406/389417435-eada5efd-ca8f-42a4-a710-4dced5c3e3da.png?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.ByJyNxSSdJTY96HCLFsVSD863GhPVt6jHQCPF2J4bJg
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#useful-settings
herehttps://mach3-software.github.io/MaCh3/Structs_8h.html#a960da89e33ac45a56f7bbfac3068dc67
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#other-useful-plots
herehttps://github.com/mach3-software/MaCh3/wiki
the wikihttps://github.com/mach3-software/MaCh3/wiki
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#llh-scans
https://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#sigma-variations
herehttps://github.com/mach3-software/MaCh3?tab=readme-ov-file#python
the wikihttps://github.com/mach3-software/MaCh3/wiki/15.-Plotting#custom-plotting-scripts
requirements.txthttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial/blob/main/requirements.txt
MCMCPlotting-tutorial.pyhttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial/blob/main/plotting/MCMC-plotting-tutorial.py
Other Useful Plotshttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#other-useful-plots
https://private-user-images.githubusercontent.com/72074672/374236053-bdb1792f-3d52-4ea3-8eb8-0e6cf7b9119a.PNG?jwt=eyJ0eXAiOiJKV1QiLCJhbGciOiJIUzI1NiJ9.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.13Akeuq1W3z9V8OYmAGqGO0O5D3UVqnNTD1l73nJVH0
Other Useful Plotshttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial#other-useful-plots
1DPosterior-tutorial.pyhttps://patch-diff.githubusercontent.com/mach3-software/MaCh3Tutorial/blob/main/plotting/1DPosterior-tutorial.py
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