KaKs_Calculator calculating selective pressure on coding and non-coding sequences
Introduction
KaKs_Calculator is capable for calculating selective pressure on both coding and non-coding sequences. For coding sequences, it integrates several methods to calculate nonsynonymous (Ka) and synonymous (Ks) substitution rates; particularly, it adopts model selection and model averaging to include as many features as needed for accurately capturing evolutionary information in protein-coding sequences. Similar to the Ka/Ks ratio for coding sequences, selection on non-coding sequences can be quantified as non-coding nucleotide substitution rate (Kn) normalized by synonymous substitution rate of adjacent coding sequences.
Publications
KaKs_Calculator 3.0: Calculating Selective Pressure On Coding And Non Coding Sequences.
Cite thisCited by 90 (Google Schoolar as of February 5, 2024)KaKs_Calculator 2.0: A Toolkit Incorporating Gamma Series Methods And Sliding Window Strategies.
Cited by 1267 (Google Schoolar as of February 5, 2024)KaKs_Calculator: Calculating Ka And Ks Through Model Selection And Model Averaging.
Cited by 997 (Google Schoolar as of February 5, 2024)
Credits
- Zhang Zhang zhangzhang@big.ac.cn InvestigatorDeveloper
National Genomics Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences / China National Center for Bioinformation, China
Community Ratings
| Usability | Efficiency | Reliability | Rated By |
|---|---|---|---|
| 5 users | |||
| Sign in to rate | |||
| zha***g@big.ac.cn (June 28, 2017) | |||
| dot***g@gmail.com (June 29, 2017) | |||
| wan***n@big.ac.cn (January 17, 2018) | |||
| zou***d@big.ac.cn (December 8, 2021) | |||
| chu***n@big.ac.cn (December 19, 2023) | |||
| Accession | BT000001 |
|---|---|
| Tool Type | Application |
| Category | Natural selection, Comparative analysis |
| Platforms | Linux/Unix, MAC OS X, Windows |
| Technologies | C++ |
| User Interface | Desktop GUI, Terminal Command Line |
| Latest Release | 3.0 (June 24, 2017) |
| Download Count | 8000 |
| Country/Region | China |
| Submitted By | Zhang Zhang |