| The following software packages can be downloaded freely. If you find them useful, please email me: lliang@hsph.harvard.edu. Comments and suggestions are welcome! If you are using Mac OS, please read this. |
| GENOME | A rapid coalescent-based whole genome simulator |
| mRNA by SNP Browser | The database contains association results of 50k transcripts with 400K SNPs. |
| BestRepeat | The R package to calculate the optimal number of repeated measures for quantitative trait linkage analysis. |
| GSM | Genotype-based matching to correct for population stratification in large-scale case-control Genetic Association Studies. |
| MQLS | The MQLS program for case-control association testing with related individals using genotype or allele dosage data |
| eQTL imputation analysis | Web-based browser for gene expression analysis using imputed HapMap genotypes |
| eQTL weighted GWAS | R function to perform genome-wide association analysis guided by eQTL information |
| Cross tissue methylation | R package to learn methylation relationship between tissues |
| MetProc | R package for metabolomic data processing |
| IDCheck | R package for detection of sample contamination in RNA-seq data |