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Paweł Biernat's starred repositories

algo

Set up a personal VPN in the cloud

Language:JinjaAGPL-3.028982 449 1596

prefect

Prefect is a workflow orchestration framework for building resilient data pipelines in Python.

Language:PythonApache-2.017460 165 5681

jupytext

Jupyter Notebooks as Markdown Documents, Julia, Python or R scripts

Language:PythonMIT6651 72 677

papermill

📚 Parameterize, execute, and analyze notebooks

Language:PythonBSD-3-Clause5975 86 403

voila

Voilà turns Jupyter notebooks into standalone web applications

Language:PythonNOASSERTION5461 73 741

prelude

Prelude is an enhanced Emacs 25.1+ distribution that should make your experience with Emacs both more pleasant and more powerful.

Language:Emacs Lisp5122 174 913

interpretable-ml-book

Book about interpretable machine learning

Language:Jupyter NotebookNOASSERTION4796 139 206

Gen.jl

A general-purpose probabilistic programming system with programmable inference

Language:JuliaApache-2.01801 76 300

ngboost

Natural Gradient Boosting for Probabilistic Prediction

Language:PythonApache-2.01655 44 208

Zygote.jl

21st century AD

Language:JuliaNOASSERTION1483 51 858

fancyimpute

Multivariate imputation and matrix completion algorithms implemented in Python

Language:PythonApache-2.01251 25 117

bandinchina

Naming and shaming companies who kowtow to Chinese censorship requests

Language:HTML1037 49 81

HungaBunga

HungaBunga: Brute-Force all sklearn models with all parameters using .fit .predict!

Language:PythonMIT713 23 14

Slic3r

Slic3r with integrated electronics and Nonplanar slicer (see branches)

Language:C++AGPL-3.0602 69 48

anndata

Annotated data.

Language:PythonBSD-3-Clause577 14 737

rethinking-numpyro

Statistical Rethinking (2nd ed.) with NumPyro

Language:Jupyter NotebookMIT448 13 14

paga

Mapping out the coarse-grained connectivity structures of complex manifolds.

Language:Jupyter NotebookBSD-3-Clause208 10 29

mhcflurry

Peptide-MHC I binding affinity prediction

Language:PythonApache-2.0193 19 144

velocyto.py

RNA velocity estimation in Python

Language:PythonBSD-2-Clause160 13 374

Drop-seq

Java tools for analyzing Drop-seq data

Language:JavaMIT120 20 116

tape-neurips2019

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

Language:PythonMIT118 9 17

jupyterlab-topbar

JupyterLab Top Bar extensions

Language:TypeScriptBSD-3-Clause108 7 30

EvoProtGrad

Directed evolution of proteins in sequence space with gradients

Language:Jupyter NotebookBSD-3-Clause68 8 8

UMICollapse

Accelerating the deduplication and collapsing process for reads with Unique Molecular Identifiers (UMI). Heavily optimized for scalability and orders of magnitude faster than a previous tool.

Language:JavaMIT63 3 31

FrameDiPT

FrameDiPT: an SE(3) diffusion model for protein structure inpainting

Language:Jupyter NotebookNOASSERTION52 50

ImmuneBuilder

Predict the structure of immune receptor proteins

Language:Jupyter NotebookBSD-3-Clause46 4 26

numpydoc.el

Insert NumPy style docstrings in Python functions.

Language:Emacs LispGPL-3.046 4 9

PBA

Population balance analysis

Language:Python44 4 3

scRNA-script

Generic script for the analysis of scRNA-seq data pre-processed using https://github.com/Hoohm/dropSeqPipe.

MIT201

ha-kaiterra

Home Assistant custom component for the Kaiterra's devices

Language:PythonMIT1 30