Vivek Appadurai's repositories
CodeEval
Solved CodeEval challenges
Coursera-Machine-Learning
Solutions to Octave Exercises from Stanford's Machine Learning Course on Coursera
custom_gwas
Python Code using CyVCF2 to run custom GWAS models on imputed VCF files
finemapping-pipeline
Pipeline to perform finemapping of GWAS results from SAIGE mixed linear model analysis using PolyFun, SuSiE and FINEMAP
FunctionalProgrammingInScala
Code and coursework for the Functional Programming in Scala course from EPFL offered through Coursera
ibp_ld_hub
LD Hub pipeline using an in house trait repository
Impute5_pipeline
Imputation pipeline using IMPUTE5
impute_paper
Code used for the paper, "Legacy data, whole genome imputation, and the analysis of Psychiatric traits: Lessons from the iPSYCH case-cohort study"
Util
Utility scripts and other one time use code
magma_pipeline
Pipeline to perform gene level analysis using MAGMA
miamiplot
An R package for creating ggplot2 based miami plots.
PolygenicRiskServer
Working repository for development of a server to calculate risk scores
PRsice-wdl
A cromwell/wdl pipeline for polygenic scoring using PRSice_v2.0
PythonDataScienceHandbook
Jupyter Notebooks for the Python Data Science Handbook
sBayesR-wdl
A cromwell/wdl pipeline for polygenic scoring using sBayesR
shiny_stuff
Practice exercises using R shiny
SpringBoard
SpringBoard Foundations of Data Science Workshop
vaqm2
Config files for my GitHub profile.
vaqm2.github.io
Repository for a personal webpage
xDx2
Analysis and plotting code for iPSYCH Cross Disorder 2 project