Clock implementation#
The following collection of Jupyter Notebooks provides a comprehensive guide to the implementation of various biological clocks. Each notebook is dedicated to a specific analysis.
- ABEC
- AltumAge
- BiTAge
- cABEC
- CamilloH3K27ac
- CamilloH3K27me3
- CamilloH3K36me3
- CamilloH3K4me1
- CamilloH3K4me3
- CamilloH3K9ac
- CamilloH3K9me3
- CamilloPanHistone
- CpGPTGrimAge3
- CpGPTPCGrimAge3
- DeconvoluteBloodEPIC
- DeconvoluteBloodEPIC
- DeconvoluteBloodEPIC
- DeconvoluteBloodEPIC
- DeconvoluteBloodEPIC
- DeconvoluteBloodEPIC
- DNAmFitAge
- DNAmFitAgeGaitF
- DNAmFitAgeGaitM
- DNAmFitAgeGripF
- DNAmFitAgeGripM
- DNAmFitAgeVO2Max
- DNAmPhenoAge
- DNAmIC
- DNAmTL
- DunedinPACE
- eABEC
- ENCen100
- ENCen40
- epiTOC1
- epiTOC2
- Not used; computation happens in the model forward
- EnsembleAgeStatic
- EnsembleAgeStaticTop
- GrimAge
- GrimAge2
- GrimAge2ADM
- GrimAge2B2M
- GrimAge2CystatinC
- GrimAge2GDF15
- GrimAge2Leptin
- GrimAge2LogA1C
- GrimAge2LogCRP
- GrimAge2PackYrs
- GrimAge2PAI1
- GrimAge2TIMP1
- Han
- Hannum
- Horvath2013
- HypoClock
- HRSInCHPhenoAge
- IntrinClock
- Knight
- LeeControl
- LeeRefinedRobust
- LeeRobust
- Lin
- Mammalian1
- Mammalian2
- Mammalian3
- MammalianBlood2
- MammalianBlood3
- MammalianFemale
- MammalianLifespan
- MammalianSkin2
- MammalianSkin3
- McCartneyBMI
- McCartneyBodyFat
- McCartneyEducation
- McCartneyHDLCholesterol
- McCartneyLDLCholesterol
- SmokingMcCartney
- McCartneyTotalCholesterol
- Meer
- OcampoATAC1
- OcampoATAC2
- Pasta
- PCDNAmTL
- PCGrimAge
- PCHannum
- PCHorvath2013
- PCPhenoAge
- PCSkinAndBlood
- PedBE
- Petkovich
- PhenoAge
- PipekElasticNet
- PipekFilteredH
- PipekRetrainedH
- Reg
- RepliTali
- RetroelementAgeV1
- RetroelementAgeV2
- SkinAndBlood
- stemTOC
- StocH
- StocP
- StocZ
- Stubbs
- SystemsAge
- SystemsAgeBlood
- SystemsAgeBrain
- SystemsAgeHeart
- SystemsAgeHormone
- SystemsAgeImmune
- SystemsAgeInflammation
- SystemsAgeKidney
- SystemsAgeLiver
- SystemsAgeLung
- SystemsAgeMetabolic
- SystemsAgeMusculoSkeletal
- Thompson
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- TwelveCellDeconvoluteBloodEPIC
- XChrom
- No base model needed; scores computed in forward
- YChrom
- No base model needed; scores computed in forward
- YingAdaptAge
- YingCausAge
- YingDamAge
- ZhangBLUP
- ZhangEN
- ZhangMortality
- Template