cjieming2's repositories
jmtools
This is a sandbox of scripts that I have created (~95%) or gathered from others since 2007. It is only stored here for utility and posterity. They are all constantly being updated, thus they should be treated as work-in-progress - raw and unpolished. Please ask for permission before publishing.
fratools
PERL scripts for managing genotype array data.
R_Codes
This is a sandbox of scripts that I have created (~98%) or gathered from others since 2007. It is only stored here for utility and posterity. They are all constantly being updated, thus they should be treated as work-in-progress - raw and unpolished. Please ask for permission before publishing.
alleleDB
The package includes the AlleleDB pipeline developed in the Gerstein Lab at Yale. This pipeline was built and applied to perform a uniform identification of SNVs associated with allele-specific binding and expression in 382 individuals from the 1000 Genomes Project. Please see website for more detailed README.
motifVar
The package includes the MotifVar pipeline developed in the Gerstein Lab at Yale for the Intensification resource. This pipeline was used to generate SNV population-genetic profiles using a variety of public data sources, including SMART domain database, ExAC, Ensembl and VEP. Please see website for more detailed README.
immTransplant
Solid organ transplantation resource curated from clinical studies from the ImmPort database
varimedrisk
Scripts for running risk quantification using VARIMED and RiskOgram visualization in R