What output files do I get with Kangooroo?

The result files available for download include:

• UMI_extracted .fastq files (If UMIs are included in the library prep)

• Trimmed .fastq files with fastqc (.html) and stats reports / Trimmed statistics and fastqc report

• Aligned .bam files with alignment report / Aligned log files

• Collapsed aligned .bam files and stats reports (if UMIs are included in the library prep) / UMI_collapsed statistics

• Coverage .bw files

• Gene counting .tsv files for each samples

• Transcript_concentration .? (Only for CORALL data analysis)

• Counting_summary .tsv file

• DEG: normalized counts .tsv files, pairwise summary .txt and results .tsv files for each condition comparison (when differential gene expression is specified)

• Multiqc rseqc report