Gifford Lab, MIT CSAIL

Pinned Repositories

antibody-2019
Language:Python31 6 313
CpGenie
Language:Python11 4 37
deepbind-docker
Docker image for the DeepBind method.
Language:Python16 8 24
DeepLigand
Language:Python17 12 912
jupyter-docker-stacks
Opinionated stacks of ready-to-run Jupyter applications in Docker. Forked to add GPU capabilities.
Language:Makefile19 7 012
Keras-genomics
Perform hyper-parameter tuning, training, testing and prediction with Keras
Language:Python44 6 419
optivax
Language:OpenEdge ABL22 16 38
overinterpretation
Code for Overinterpretation paper
Language:Jupyter Notebook19 2 17
prescient
Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
Language:Python43 14 86
PUFFIN
Language:Python17 13 67

Gifford Lab, MIT CSAIL's Repositories

gifford-lab/prescient
Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
Language:Python43 14 86
gifford-lab/antibody-2019
Language:Python31 6 313
gifford-lab/optivax
Language:OpenEdge ABL22 16 38
gifford-lab/overinterpretation
Code for Overinterpretation paper
Language:Jupyter Notebook19 2 17
gifford-lab/DeepLigand
Language:Python17 12 912
gifford-lab/PUFFIN
Language:Python17 13 67
gifford-lab/ReprogrammingRecovery
Code for creating consensus motif database and performing motif enrichment
Language:Python6 1 0
gifford-lab/deepaccess-package
Methods for training and interpretation of an ensemble of neural networks for multi-task functional prediction of accessibility or histone modifications from DNA sequence.
Language:Python5 2 0
gifford-lab/prescient-analysis
Notebooks for pre-processing, analysis, and visualization of PRESCIENT applied to in vitro hematopoeisis (Weinreb et al. 2020) and in vitro beta-cell differentiation (Veres et al. 2019).
Language:Jupyter Notebook4 12 25
gifford-lab/FactorizableLibrary
Code and data for factorizable libraries
Language:Jupyter Notebook3 1 00
gifford-lab/skipguide
Predictive model for CRISPR-Cas9 mediated Exon Skipping
Language:Python3 14 0
gifford-lab/idr2d
Irreproducible discovery rate for genomic interaction data
Language:R2 1 0
gifford-lab/seqgra
seqgra: Synthetic rule-based biological sequence data generation for architecture evaluation and search
Language:Python2 1 01
gifford-lab/6884-antibodies-data
Problem Set 2 Data
1 2 0
gifford-lab/DeepAccess
Code for training, testing, and motif extraction from multilabel DNA sequence ensemble of convolutional neural networks
Language:Python1 2 01
gifford-lab/DiminishingReturns
Constrained Submodular Optimization
Language:Jupyter Notebook1 1 0
gifford-lab/gifford-lab.github.io
New group website.
Language:SCSS1 3 2
gifford-lab/MHC2-optimization
Language:Jupyter Notebook1 1 0
gifford-lab/MIT-T-COVID-vaccine
Code for MIT-T-COVID vaccine paper
Language:Jupyter Notebook1 15 01
gifford-lab/spatzie
Identification of enriched motif pairs from chromatin interaction data
Language:R1 1 0
gifford-lab/counterselection
counterselection
Language:Jupyter Notebook
gifford-lab/disentangled
Language:Python14 0
gifford-lab/High-Resolution-STARRseq
Starrseq Analysis with the Sherwood Lab
Language:Jupyter Notebook1 0
gifford-lab/MIAA-analysis
Language:Jupyter Notebook1 01
gifford-lab/mit-6.881
Language:HTML14 0
gifford-lab/mit-6.S977
Language:HTML15 01
gifford-lab/mit-6884.github.io
Computational Aspects of Therapeutic Design
Language:Jupyter Notebook1 0
gifford-lab/motor-neuron-maturation
Supporting code for motor neuron maturation manuscript
Language:Python1 0
gifford-lab/PIQ
Language:R15 0
gifford-lab/skipguide-analysis
Language:Jupyter Notebook14 0