GitHub is home to over 40 million developers working together. Join them to grow your own development teams, manage permissions, and collaborate on projects.
TeXP is a pipeline to gauge the autonomous transcription level of L1 subfamilies using short read RNA-seq data
STARR-seq peak caller
Machine learning framework to quantify pathogenicity of structural variants
Predicting privacy risk of functional genomics data
Modelling tumor progression from a single VCF file
Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood
GRAM: A GeneRAlized Model to predict the molecular effect of a non-coding variant in a cell type-specific manner
Spectral and reproducibility analysis of Hi-C contact maps
CBB752 SP2019 Course Website
MUltiScale enrIchment Calling for ChIP-Seq Datasets
Software for preprocessing, filtering, alignment, and reporting of smallRNA-seq datasets
TF Motif Variant Analysis
Server code for STRESS
RADAR source code
Output files and source code for our project predicting functional upstream open reading frames.
Prediction of Active Enhancers and Promoters in a Cell type specific manner using shape matching of histone and/or DNase-I hypersensitivity profiles
ALOFT, the Annotation Of Loss-of-Function Transcripts, provides extensive functional annotations to loss-of-function variants in the human genome.
Using sliding window to extract k-mers for annotation (specfically exons) in GTF format
Gerstein Lab Personal Page
Logistic regression fitting code designed for use with CUDA. Rather than speeding up the running time of a single regression, the code performs the regression in parallel on hundreds of samples.
Negative binomial regression fitting code in C++. Adapted from R source code.