gersteinlab Goto Github PK

genai4drug

genetracer

genodock_local

gersteinlab.github.com

Gerstein Lab Personal Page

github_howto

How the Gerstein lab can most effectively use Github

gram

GRAM: A GeneRAlized Model to predict the molecular effect of a non-coding variant in a cell type-specific manner

hic-spector

Spectral and reproducibility analysis of Hi-C contact maps

hotcommics

idash-blockchain

idash19

idash19 solutions

idash19bc

Solution to iDASH'19 challenge track 1

idash19he

idash20fl

idash22bc

Solution to track 1 of iDASH 2022 secure genome analysis competition

idash23bc

Solution to Track 2 of the 2023 iDASH competition

intensification

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. This is a SEMI-automated pipeline, where possible manual work can be done on a small number of modules to make your analyses more accurate or specific to your needs. These modules are highlighted in the README and motifvar.sh wrapper with -m.

iqseq

Isoform quantification from RNA-seq data

larva

Large-scale Analysis of Recurrent Variants in noncoding Annotations

latentdag

lesseq

Local Event-based analysis of alternative Splicing using RNA-Seq

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.

loregic

matchedfilter

Prediction of Active Enhancers and Promoters in a Cell type specific manner using shape matching of histone and/or DNase-I hypersensitivity profiles

medagents

mediqa-chat-2023

MEDIQA-Chat-2023 GersteinLab solution

mhealthci

mimir

demo

ml-bench

The Official Repo of ML-Bench: Evaluating Large Language Models and Agents for Machine Learning Tasks on Repository-Level Code (https://arxiv.org/abs/2311.09835)

moat

Mutations Overburdening Annotations Tool

mobi