Discover @kkdey Open Source projects

Kushal K Dey (@kkdey)

kkdey

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Location 🇺🇸 United States
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CountClust

A R package for Grade of Membership model and Visualization of counts data:

GSSG

Gene Set + S2G strategy annotations analyzed for disease architecture

Logolas

R package for Enrichment Depletion Logos (EDLogos) and String Logos

CorShrink

R package for adaptive correlation and covariance matrix shrinkage.

aRchaic

Exploration, clustering, visualization and classification of DNA damage patterns

classtpx

An R package for Semi-supervised Topic models

cellcycleR

R package for cell cycle phasing and analysis

ecostructure

Clustering and Visualization of species abundance patterns in ecological data

Imperio

Repository for performing DeepBoost, S2G linking and Imperio models linking deep learning models with complex traits

tmcmcR

A Rcpp package for fitting RWMH, TMCMC, adaptive RWMH/TMCMC, MC3 and TMC3 chains.

metagenomics

This is an application of some statistical methods for clustering of samples based on OTU abundance and also some novel differential analysis.

tmcmc

A new alternative to MCMC- this repo will store the latest R and Matlab scripts and other important stuff that have been

Logolas-paper

Codes and tex files reproducing the Logolas paper

dashr

R package for Dirichlet adaptive shrinkage and smoothing

Robocov

Sparse and Robust estimation of covariance, correlation and precision matrices when data has missing entries

singlecellLDSC

single cell + disease

bioviz

Interactive Visualization of statistics and genomics using Javascript

singlecellseq

iPSC single cell analysis

aRchaic-old-2

R package for ancient DNA damage modeling

ordtpx

An R package for topic model on ordered features

Obesity

This repository hosts all the relevant R codes, word docs for the Obesity Project I am currently doing with Shajith.

covtpx

Covaraite adjusted Grade of Membership Model (covGoM)

flashr

Factor Loading with Adaptive Shrinkage in R

wave-sfa

This repository is aimed at applying wavelet transform for driving topic models and sparse factor analysis with ordered variables

singlecellRNAseqData

Bioconductor data package for hosting single cell RNA-seq data

CREGENE_GWAS_benchmark

Benchmarking different ENCODE CRE-gene links based on disease heritability

deeptpx-ghpages

Deep topic model for clustering RNA-seq expression data

GxT

GxT is a software interface for computing gene trait association score

dash

Dirichlet adaptive shrinkage for compositional data

methClust

Grade of Membership clustering in methylation data

GTExV6Brain

Bulk-RNA data across brain samples GTEx V6 project

wallace_analysis

Bird presence absence data analysis around Wallacea

WEAVER

Word Enrichment Analysis using VEctor Representations