Data, Results, and Analysis Repository for "TimeCycle: Topology Inspired MEthod for the Detection of Cycling Transcripts in Circadian Time-Series Data."

Elan Ness-Cohn and Rosemary Braun

---

---

This Git Repo contains all the data, results, and analysis scripts associated with the TimeCycle algorithm.

• See the TimeCycle Paper at https://doi.org/10.1093/bioinformatics/btab476
• See the TimeCycle Package at https://nesscoder.github.io/TimeCycle/

---

Download

Download the .zip file with the green download button above or install via the terminal

 
 git clone https://github.com/nesscoder/TimeCycle-data.git
 

Once downloaded, run master\_generateSyntheticData.R found in the directory TimeCycle-data/Scripts/SyntheticGenerationScripts/ to generate the synthetic data files.

---

Contents

The TimeCycle Git Repository includes the following:

Data

• Raw/preprocessed synthetic and real datasets

Results

• Results of processing all 180 synthetic and 3 biological datasets with TimeCycle and accompany methods

Scripts

• Scripts used to generate the synthetic data
• Scripts used to generate each figure in the manuscript
• Scripts used to process data by each method, includes masterfile of parameters

---

Reference

TimeCycle is Currently Published in Bioinfomatics: See Article

Elan Ness-Cohn, Rosemary Braun, TimeCycle: Topology Inspired MEthod for the Detection of Cycling Transcripts in Circadian Time-Series Data, Bioinformatics, 2021; btab476, https://doi.org/10.1093/bioinformatics/btab476

TimeCycle 2020, Northwestern University