Difference between revisions of "LIQA"
Johnbullard (talk | contribs) (Created page with "Category:Software {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|liqa}} |{{#vardefine:url|https://github.com/WGLab/LIQA}} <!--CONFIGURATION: OPTIONAL (|1}} means it's...") |
|||
| Line 1: | Line 1: | ||
| − | [[Category:Software]] | + | [[Category:Software]][[Category:Phylogenetics]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|liqa}} | |{{#vardefine:app|liqa}} | ||
Latest revision as of 20:03, 15 August 2022
Description
LIQA (Long-read Isoform Quantification and Analysis) is an Expectation-Maximization based statistical method to quantify isoform expression and detect differential alternative splicing (DAS) events using long-read RNA-seq data. LIQA incorporates base-pair quality score and isoform-specific read length information to assign different weights across reads instead of summarizing isoform-specific read counts directly. Moreover, LIQA can detect DAS events between conditions using isoform usage estimates.
Environment Modules
Run module spider liqa to find out what environment modules are available for this application.
System Variables
- HPC_LIQA_DIR - installation directory
- HPC_LIQA_BIN - executable directory
Citation
If you publish research that uses liqa you have to cite it as follows:
Yu Hu, Li Fang, Xuelian Chen, Jiang F. Zhong, Mingyao Li, Kai Wang. LIQA: Long-read Isoform Quantification and Analysis. 2020. bioRxiv doi: https://doi.org/10.1101/2020.09.09.289793