Page Index - genetics-of-dna-methylation-consortium/goDMC_phase2 GitHub Wiki
90 page(s) in this GitHub Wiki:
- Home
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- 1000G imputation
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- Additionalfiles easyQC.multi.AFCHECK.png
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- Analysis of chromosome X and chromosome Y CpGs
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- Analyst Quick Start Guide to Pipeline
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- Case control studies
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- Check data
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- chromosome X
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- Convert impute2 imputed data to bestguess data
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- Convert mach minimac imputed data to bestguess data (.info .dose or .mlinfo .mldose files)
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- Convert minimac3 imputed data to bestguess data (vcf files)
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- Covariate data
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- Encryption
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- Example code to submit 07b script
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- FAQ
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- Imputed genetic data
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- Install and set up
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- Instructions for developers
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- Longitudinal studies
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- new cohorts
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- Normalised methylation data
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- Participation requirements
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- Process methylation data
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- Process SNP data
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- Run cell type interacting meQTL analysis
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- Run GWAS of age acceleration
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- Run GWAS of cell counts
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- Run GWAS of MZ twinning
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- Run GWAS of smoking
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- Run GWAS of the imprinted gene nc886
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- Run inversion mQTL analysis
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- Run meQTL analysis
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- Run PRS EWAS
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- Run variance meQTL analysis
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- Running script 3b and 3e on a cluster
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- Script Flowchart
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- Set up folders
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- Studies with both 450k and EPIC
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- Studies with both EPICv1 and EPICv2
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- Submitting an issue
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- sudo rights
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- System requirements
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- What if I have a dataset with both EPIC v1 and v2?
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- What if I have multiple datasets to process?
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- What to do if it goes wrong
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