lzamparo

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Recursion Pharmaceuticals

Toronto, ON

http://lzamparo.github.io

Lee Zamparo's repositories

DNAbarcodes

Simple generator of DNA barcodes for sequencing experiments

Language:PythonMIT6 20

AML_ATAC

Analyzing the ATAC-seq data from Eirini & Tiansu's AML development model

Language:RMIT100

crisprML

Library design for CRISPr screen

Language:RBSD-3-Clause100

SeqDemote

CNNs for learning informative sub-sequence regions to predict accessibility or TF binding

Language:PythonMIT100

allennlp-demo

code for demo.allennlp.org

Language:PythonApache-2.0000

AttentionDeepMIL

Implementation of Attention-based Deep Multiple Instance Learning in PyTorch

Language:PythonMIT000

bindspace_revisions

Revisions for BindSpace

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blog_source

source and posts that generates content for lzamparo.github.io

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coling2018

data and code for coling2018 paper

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dask-jobqueue

Deploy Dask on job schedulers like PBS, SLURM, and SGE

Language:PythonBSD-3-Clause000

DiCE

Generate Diverse Counterfactual Explanations for any machine learning model.

Language:PythonMIT000

embedding

Learning semantic embeddings for TF binding preferences directly from sequence

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epig

Prediction-oriented Bayesian active learning (AISTATS 2023)

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kipoi

Kipoi's model zoo API

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lzamparo.github.io

my github.io site

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MCMC_and_Dynamics

Practice with MCMC methods and dynamics (Langevin, Hamiltonian, etc.)

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mistral-src

Reference implementation of Mistral AI 7B v0.1 model.

Language:Jupyter NotebookApache-2.0000

practice

practice code for coding interviews; linked lists, stacks, queues and the like.

Language:Jupyter NotebookMIT010

protein_fitness

test for protein fitness

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PyTorchNLPBook

Code and data accompanying Natural Language Processing with PyTorch published by O'Reilly Media https://nlproc.info

Language:Jupyter NotebookApache-2.0010

Representer_Point_Selection

code release for Representer point Selection for Explaining Deep Neural Network in NeurIPS 2018

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safe_harbor

Side project to find jointly accessible regions in pairs of celltypes

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sams-vae

Public Codebase supporting the paper "Modeling Cellular Perturbations with The Sparse Additive Mechanism Shift Variational Autoencoder" by Bereket & Karaletsos published in Neurips 2023

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ShogunScripts

These scripts were written by Irene Kaplow for running Shogun with various kernels.

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simple-ebms

Contrastive-divergence EBMs on toy 2D datasets. Can be trained and visualised with a simple API.

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simple_spearmint

Spearmint, without the gum

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sparse-structured-attention

Sparse and structured neural attention mechanisms

Language:PythonBSD-3-Clause000

TCN

Sequence modeling benchmarks and temporal convolutional networks

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VQ-VAE

Minimalist implementation of VQ-VAE in Pytorch

Language:PythonBSD-3-Clause000

yahoo-earnings-calendar

Scrapes Yahoo! Finance earnings calendar to get data for a specific date or a date range.

Language:PythonMIT010