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argmaxblog

autograd

Efficiently computes derivatives of numpy code.

baseedit-app

Heroku web app with Dash Plotly

be-modeling

Code used for training BE-Hive models

be_predict_bystander

Deep conditional autoregressive models for genome editing sequence-to-sequence problems

be_predict_efficiency

bimm185

A Machine Learning Approach to Optimization of Sequence Alignment Scoring Parameters

deepmera_design

design_meratiling

evoracle

A method for reconstructing frequency trajectories and fitnesses of long genotypes from short read data from directed evolution timepoints.

evoracle-dataprocessinganalysis

explore-implicit-sgd

gflownet

grna_count

hackerargs

Configurable options in 1 line of code

human_eqtl_ure

iap-appbml

Applied Probabilistic Programming & Bayesian Machine Learning (MIT IAP 2017)

iap-cidl

Causal Inference & Deep Learning, MIT IAP 2018

implicit-learning-gans

indelphi-app

Heroku/Dash app for inDelphi.

indelphi-dataprocessinganalysis

Data Processing, Modeling and Analysis scripts for CRISPR-inDelphi

indelphi-model

Predictive model for CRISPR-mediated DNA repair outcomes through NHEJ/MMEJ, built with machine learning

kellis

latent-multigp-inference

Joint inference of 10 latent Gaussian processes on time series data with latent stochastic weekend/holiday/Covid effectsGPyTorch and Pyro

lib-analysis

lib-dataprocessing

mera_tiling

Tiling Assay for MERA

mylib

A collection of generically useful scripts and functions

pacbio_assembly

Current Project: PacBio Long Read Assembly with Pavel Pevzner

pamvar-processing