CPSS 2.0: a computational platform update for the analysis of small RNA sequencing data

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Next-generation sequencing has been widely applied to understand the complexity of non-coding RNAs (ncRNAs) in the last decades. Here, we present CPSS 2.0, an updated version of CPSS 1.0 for small RNA sequencing data analysis, with the following improvements: (i) a substantial increase of supported species from 10 to 48; (ii) improved strategies applied to detect ncRNAs; (iii) more ncRNAs can be detected and profiled, such as lncRNA and circRNA; (iv) identification of differentially expressed ncRNAs among multiple samples; (v) enhanced visualization interface containing graphs and charts in detailed analysis results. The new version of CPSS is an efficient bioinformatics tool for users in non-coding RNA research.

Availability and implementation

CPSS 2.0 is implemented in PHP + Perl + R and can be freely accessed at


zyuanwei@ustc.edu.cn or qshi@ustc.edu.cn

Supplementary information

Supplementary data are available at Bioinformatics online.

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