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texp
TeXP is a pipeline to gauge the autonomous transcription level of L1 subfamilies using short read RNA-seq data
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starrpeaker
STARR-seq peak caller
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SVFX
Machine learning framework to quantify pathogenicity of structural variants
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FANCY
Predicting privacy risk of functional genomics data
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Evotum101
Modelling tumor progression from a single VCF file
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siglasso
Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood
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GRAM
GRAM: A GeneRAlized Model to predict the molecular effect of a non-coding variant in a cell type-specific manner
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cbb752b19
CBB752 SP2019 Course Website
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MUSIC
MUltiScale enrIchment Calling for ChIP-Seq Datasets
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exceRpt
Forked from rkitchen/exceRptSoftware for preprocessing, filtering, alignment, and reporting of smallRNA-seq datasets
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STRESSserver
Server code for STRESS
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PsychENCODE-DSPN
#DSPN
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RADAR
RADAR source code
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uORFs
Output files and source code for our project predicting functional upstream open reading frames.
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MatchedFilter
Prediction of Active Enhancers and Promoters in a Cell type specific manner using shape matching of histone and/or DNase-I hypersensitivity profiles
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aloft
ALOFT, the Annotation Of Loss-of-Function Transcripts, provides extensive functional annotations to loss-of-function variants in the human genome.
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annotation-k-mer-extractor
Using sliding window to extract k-mers for annotation (specfically exons) in GTF format
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GenoDock_local
Forked from bowangatyale/GenoDock_local -
gersteinlab.github.com
Gerstein Lab Personal Page
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logit-fit
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.
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nb-fit
Negative binomial regression fitting code in C++. Adapted from R source code.
