Pinned Repositories
4UMich
Prep for UMichigan imputation server
assembleFROMcohorts
A shell script that will recursively search over the directory/subdirectories to find and extract individuals from an ID list that are present in multiple different PLINK binary files in many different locations
BI-ENRICH-LN
BI-ENRICH-LN
cohort2keep
A script that uses PLINK to determine optimal MDS dimensions to use to adjust for population stratification
contrastive
Contrastive PCA
fam2PLINKpheno-cov
From PLINK *.fam files and phenotype/covariate databases, generates PLINK pheno and cov files for GWAS
GCTArun
Runs GCTA to determine heritability estimates of a given phenotype
imputed2snptest
Concatenates IMPUTE2 chunks as *.gen file and generates related *.sample base files from pre-imputed genotypes
IMPUTEfromGitHub
This is a script that assembles latest imputation pipeline files from GitHub and the runs imputation on the specified QCed files
loganschneider's Repositories
loganschneider/fam2PLINKpheno-cov
From PLINK *.fam files and phenotype/covariate databases, generates PLINK pheno and cov files for GWAS
loganschneider/GCTArun
Runs GCTA to determine heritability estimates of a given phenotype
loganschneider/imputed2snptest
Concatenates IMPUTE2 chunks as *.gen file and generates related *.sample base files from pre-imputed genotypes
loganschneider/IMPUTEfromGitHub
This is a script that assembles latest imputation pipeline files from GitHub and the runs imputation on the specified QCed files
loganschneider/4UMich
Prep for UMichigan imputation server
loganschneider/assembleFROMcohorts
A shell script that will recursively search over the directory/subdirectories to find and extract individuals from an ID list that are present in multiple different PLINK binary files in many different locations
loganschneider/BI-ENRICH-LN
BI-ENRICH-LN
loganschneider/cohort2keep
A script that uses PLINK to determine optimal MDS dimensions to use to adjust for population stratification
loganschneider/contrastive
Contrastive PCA
loganschneider/DaylightSaving-Seizures
Analysis of DST-related seizure incidence in Seizure Tracker data from 2008-2016 with over 12 million documented seizures.
loganschneider/GenABEL
Runs GenABEL to find optimal number of MDS dimensions for population stratification correction
loganschneider/genstats
Statistics course for JHU Genomic Data Science Sequence
loganschneider/hypersomniaML
Machine learning methods for categorization of hypersomnias/controls from PSG & MSLT data
loganschneider/IMPUTE-PIPELINE-MIGNOT-LAB
A pipeline to impute plink genotypes to 1000 Genomes phase 1
loganschneider/IMPUTE_PIPELINE_MIGNOT_SLURM_VER
This pipeline is a slurm version of the IMPUTE_PIPELINE
loganschneider/machine-learning
:earth_americas: machine learning algorithms tutorials (mainly in Python3)
loganschneider/multitaper_toolbox
Code for computing multitaper spectrogram implemented in Matlab, Python, and R
loganschneider/ProgrammingAssignment2
Repository for Programming Assignment 2 for R Programming on Coursera
loganschneider/QCnew
QC pipeline for cleaning genotypes
loganschneider/sev
Human sleep analysis toolbox and software for MATLAB
loganschneider/SpectralAnalysis
Batch extraction of spectral data from SpectralTrainFig outputs for interpretation/analysis
loganschneider/Spoon-Knife
This repo is for demonstration purposes only.
loganschneider/STAMS
Implements STAMS algorithm
loganschneider/test-repo