How are my WTS data analyzed with Kangooroo?

The WTS data analysis pipeline includes:

• MultiQC analysis of raw FASTQ files (multiqc V1.5)

• UMI extraction (if UMI option specified in the pipeline´s parameters)

• Trimming (Cutadapt V1.18)

• MultiQC analysis of trimmed FASTQ files (multiqc V1.5)

• Alignment (STAR V2.6.1a)

• UMI collapsing (If UMI option specified in the pipeline´s parameters)

• Coverage and MultiQC analysis of aligned files (multiqc V1.5)

• Mix² for transcript isoform quantification (Mix² is a Lexogen´s proprietary software, for more information please visit our webpage Mix² RNA-Seq Data Analysis Software)

• Gene counting (FeatureCounts V1.6.4)

• Differential gene expression analysis (DESeq2 V1.18.1)