CellRank's reproducibility repository.

Last update: Oct 08, 2022

Overview

CellRank's reproducibility repository

We believe that reproducibility is key and have made it as simple as possible to reproduce our results. Please either open an issue or contact as at [email protected] should you experience difficulties reproducing any result.

Manuscript, code and data

CellRank is published in Nature Methods and the software package can be found at our main website, cellrank.org. Raw published data is available from the Gene Expression Omnibus (GEO) under accession codes:

Processed data, including spliced and unspliced count abundances, is available on figshare. To ease reproducibility, our data examples can also be accessed through CellRank's dataset interface.

Navigating this repository

We've organized this repository along the categories below. For each item, you can click the link under nbviewer to open the notebook in the browser using nbviewer. There is no 1-1 mapping from figures to notebooks - some notebooks produce panels for several figures, and some figures contain panels from several notebooks. The tables we provide here make the connection between figures and notebooks explicit. At the top of each notebook, we indicate the package versions we use.

Results

Main Figures

Figure	nbviewer	Notebook Path
Fig. 1	link	path
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Fig. 5 Palantir	link	path
Fig. 5 STEMNET	link	path
Fig. 5 Velocyto	link	path
Fig. 5 FateID	link	path
Fig. 6	link	path

Extended Data Figures

Figure	nbviewer	Notebook Path
Extended Data Fig. 1	NA (toy data)	NA (toy data)
Extended Data Fig. 2	link	path
Extended Data Fig. 3	link	path
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Extended Data Fig. 8	link	path
Extended Data Fig. 9	link	path
Extended Data Fig. 10	link	path

Supplementary Figures

Figure	nbviewer	Notebook Path
Supplementary Fig. 1	link	path
Supplementary Fig. 2	link	path
Supplementary Fig. 3	link	path
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Supplementary Fig. 12	link1 link2	path1 path2
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Supplementary Fig. 17	NA (microscopy results)	NA (microscopy results)

Supplementary Tables

Table	nbviewer	Notebook Path
Supplementary Tab. 1	link	path
Supplementary Tab. 2	link	path
Supplementary Tab. 3	link	path

CellRank's reproducibility repository.

Related tags

Overview

CellRank's reproducibility repository

Manuscript, code and data

Navigating this repository

Results

Owner

Theis Lab

Audio Domain Adaptation for Acoustic Scene Classification using Disentanglement Learning

You Only Sample (Almost) Once: Linear Cost Self-Attention Via Bernoulli Sampling

Based on the paper "Geometry-aware Instance-reweighted Adversarial Training" ICLR 2021 oral

This repository contains the code to replicate the analysis from the paper "Moving On - Investigating Inventors' Ethnic Origins Using Supervised Learning"

Pytorch implementation of PCT: Point Cloud Transformer

Code release for "Self-Tuning for Data-Efficient Deep Learning" (ICML 2021)

Second Order Optimization and Curvature Estimation with K-FAC in JAX.

codes for Self-paced Deep Regression Forests with Consideration on Ranking Fairness

Pytorch Implementations of large number classical backbone CNNs, data enhancement, torch loss, attention, visualization and some common algorithms.

Experimental Python implementation of OpenVINO Inference Engine (very slow, limited functionality). All codes are written in Python. Easy to read and modify.

2021-AIAC-QQ-Browser-Hyperparameter-Optimization-Rank6

Code of paper "CDFI: Compression-Driven Network Design for Frame Interpolation", CVPR 2021

SPTAG: A library for fast approximate nearest neighbor search

Text-to-Image generation

Machine Learning Models were applied to predict the mass of the brain based on gender, age ranges, and head size.

Artifacts for paper "MMO: Meta Multi-Objectivization for Software Configuration Tuning"

Pytorch implementation of NeurIPS 2021 paper: Geometry Processing with Neural Fields.

ViSD4SA, a Vietnamese Span Detection for Aspect-based sentiment analysis dataset

ProjectOxford-ClientSDK - This repo has moved :house: Visit our website for the latest SDKs & Samples

Tutoriais publicados nas nossas redes sociais para obtenção de dados, análises simples e outras tarefas relevantes no mercado financeiro.