FastqPuri: high-performance preprocessing of RNA-seq data.

ABSTRACT:

Background

RNA sequencing (RNA-seq) has become the standard means of analyzing gene and transcript expression in high-throughput. While previously sequence alignment was a time demanding step, fast alignment methods and even more so transcript counting methods which avoid mapping and quantify gene and transcript expression by evaluating whether a read is compatible with a transcript, have led to significant speed-ups in data analysis. Now, the most time demanding step in the analysis of RNA-seq data is preprocessing the raw sequence data, such as running quality control and adapter, contamination and quality filtering before transcript or gene quantification. To do so, many researchers chain different tools, but a comprehensive, flexible and fast software that covers all preprocess

SUBMITTER: Perez-Rubio P 

PROVIDER: S-EPMC6500068 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature