9 files

A "developmental hourglass" in fungi

posted on 28.07.2015, 07:28 by Xuanjin ChengXuanjin Cheng, Jerome Ho Lam Hui, Yung Yung Lee, Patrick Tik Wan Law, Hoi Shan Kwan

#PdTT Version 1.0 (January 2015)
#This program develops algorithms for Phylostratigraphy, dN/dS ratio, Transcriptome age index (TAI) and Transcriptome divergence index (TDI) analysis.

#Please cite:
#Cheng X, Hui JHL, Lee YY, Law PTW, Kwan HS. 2015. A "developmental hourglass" in fungi. Mol Biol Evol. 32(6):1556-66. doi: 10.1093/molbev/msv047

Please read carefully the following before running the programs:
README_TAI.txt for phylostratigraphy analysis and transcriptome age index (TAI) calculation, and
README_TDI.txt for dN/dS ratio analysis and transcriptome divergence index (TDI) calculation.

The algorithms are implemented in Perl. Please make sure that Perl (https://www.perl.org/) is properly installed on your computer.

All source codes are included in this fileset. You can modify some of the codes to suit the purpose of your study.