CellRank's reproducibility repository.

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
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Extended Data Figures
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Supplementary Figures
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Supplementary Fig. 17 NA (microscopy results) NA (microscopy results)
Supplementary Tables
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Owner
Theis Lab
Institute of Computational Biology
Theis Lab
Breaking Shortcut: Exploring Fully Convolutional Cycle-Consistency for Video Correspondence Learning

Breaking Shortcut: Exploring Fully Convolutional Cycle-Consistency for Video Correspondence Learning Yansong Tang *, Zhenyu Jiang *, Zhenda Xie *, Yue

Zhenyu Jiang 12 Nov 16, 2022
GAN-based 3D human pose estimation model for 3DV'17 paper

Tensorflow implementation for 3DV 2017 conference paper "Adversarially Parameterized Optimization for 3D Human Pose Estimation". @inproceedings{jack20

Dominic Jack 15 Feb 27, 2021
Repo for "TableParser: Automatic Table Parsing with Weak Supervision from Spreadsheets" at [email protected]

TableParser Repo for "TableParser: Automatic Table Parsing with Weak Supervision from Spreadsheets" at DS3 Lab 11 Dec 13, 2022

Official code for our ICCV paper: "From Continuity to Editability: Inverting GANs with Consecutive Images"

GANInversion_with_ConsecutiveImgs Official code for our ICCV paper: "From Continuity to Editability: Inverting GANs with Consecutive Images" https://a

QingyangXu 38 Dec 07, 2022
PyTorch implementation of Deep HDR Imaging via A Non-Local Network (TIP 2020).

NHDRRNet-PyTorch This is the PyTorch implementation of Deep HDR Imaging via A Non-Local Network (TIP 2020). 0. Differences between Original Paper and

Yutong Zhang 1 Mar 01, 2022
Semantic graph parser based on Categorial grammars

Lambekseq "Everyone who failed Greek or Latin hates it." This package is for proving theorems in Categorial grammars (CG) and constructing semantic gr

10 Aug 19, 2022
Viewmaker Networks: Learning Views for Unsupervised Representation Learning

Viewmaker Networks: Learning Views for Unsupervised Representation Learning Alex Tamkin, Mike Wu, and Noah Goodman Paper link: https://arxiv.org/abs/2

Alex Tamkin 31 Dec 01, 2022
SMIS - Semantically Multi-modal Image Synthesis(CVPR 2020)

Semantically Multi-modal Image Synthesis Project page / Paper / Demo Semantically Multi-modal Image Synthesis(CVPR2020). Zhen Zhu, Zhiliang Xu, Anshen

316 Dec 01, 2022
Garbage Detection system which will detect objects based on whether it is plastic waste or plastics or just garbage.

Garbage Detection using Yolov5 on Jetson Nano 2gb Developer Kit. Garbage detection system which will detect objects based on whether it is plastic was

Rishikesh A. Bondade 2 May 13, 2022
Official PyTorch Implementation of Rank & Sort Loss [ICCV2021]

Rank & Sort Loss for Object Detection and Instance Segmentation The official implementation of Rank & Sort Loss. Our implementation is based on mmdete

Kemal Oksuz 229 Dec 20, 2022
Training BERT with Compute/Time (Academic) Budget

Training BERT with Compute/Time (Academic) Budget This repository contains scripts for pre-training and finetuning BERT-like models with limited time

Intel Labs 263 Jan 07, 2023
Using some basic methods to show linkages and transformations of robotic arms

roboticArmVisualizer Python GUI application to create custom linkages and adjust joint angles. In the future, I plan to add 2d inverse kinematics solv

Sandesh Banskota 1 Nov 19, 2021
Deep GPs built on top of TensorFlow/Keras and GPflow

GPflux Documentation | Tutorials | API reference | Slack What does GPflux do? GPflux is a toolbox dedicated to Deep Gaussian processes (DGP), the hier

Secondmind Labs 107 Nov 02, 2022
Equivariant layers for RC-complement symmetry in DNA sequence data

Equi-RC Equivariant layers for RC-complement symmetry in DNA sequence data This is a repository that implements the layers as described in "Reverse-Co

7 May 19, 2022
ROS-UGV-Control-Interface - Control interface which can be used in any UGV

ROS-UGV-Control-Interface Cam Closed: Cam Opened:

Ahmet Fatih Akcan 1 Nov 04, 2022
A tutorial showing how to train, convert, and run TensorFlow Lite object detection models on Android devices, the Raspberry Pi, and more!

A tutorial showing how to train, convert, and run TensorFlow Lite object detection models on Android devices, the Raspberry Pi, and more!

Evan 1.3k Jan 02, 2023
All course materials for the Zero to Mastery Deep Learning with TensorFlow course.

All course materials for the Zero to Mastery Deep Learning with TensorFlow course.

Daniel Bourke 3.4k Jan 07, 2023
Dynamic Bottleneck for Robust Self-Supervised Exploration

Dynamic Bottleneck Introduction This is a TensorFlow based implementation for our paper on "Dynamic Bottleneck for Robust Self-Supervised Exploration"

Bai Chenjia 4 Nov 14, 2022
JUSTICE: A Benchmark Dataset for Supreme Court’s Judgment Prediction

JUSTICE: A Benchmark Dataset for Supreme Court’s Judgment Prediction CSCI 544 Final Project done by: Mohammed Alsayed, Shaayan Syed, Mohammad Alali, S

Smit Patel 3 Dec 28, 2022
[ACM MM2021] MGH: Metadata Guided Hypergraph Modeling for Unsupervised Person Re-identification

Introduction This project is developed based on FastReID, which is an ongoing ReID project. Projects BUC In projects/BUC, we implement AAAI 2019 paper

WuYiming 7 Apr 13, 2022