Pinned Repositories
CANOES
CNV-Espresso
A tool designed for confirming copy number variants from exome sequencing predictions in silico
gMVP
hotspot
igv-classifier
missense
MVP (Qi et al 2021) source code
PreMode
PreMode predicts mode-of-action of missense variants by deep graph representation learning of protein sequence and structural context
SeqDance
code for SeqDance, a biophysics-informed protein language model
SPARK_Scripts
Scripts used in SPARK project
ThreaderAI
Template-based prediction of protein structure with deep-learning
Shen Lab at Columbia University's Repositories
ShenLab/hotspot
ShenLab/episcore
ShenLab/Exome-vc-pipeline-V3
This is essentially a variation of V2, but in this case the pipeline is desgined to work on CentOS systems with out a scheduler capable of arrays and holds as per qsub.
ShenLab/LongReads
HapMut: Leveraging haplotype information in long reads for genotype and variant calling
ShenLab/network
ShenLab/exac_browser
Browser for ExAC consortium data
ShenLab/Resources
ShenLab Repository for Papers and Other Resources
ShenLab/RNA
ShenLab/RNASeq2Repertoire
ShenLab/TensorCaller
Use Tensor Calling Variants
ShenLab/Zinfandel
CNV genotyping from resequencing data
ShenLab/breast_cancer_panel
Breast Cancer Study
ShenLab/Cancer
ShenLab/HapMut
ShenLab/opera
Prototyping for summer '10 project.
ShenLab/PARABL
Parametric Bayesian Likelihood
ShenLab/Repertoire
Analytical tools for TCR sequencing data
ShenLab/SingleCell