What output files do I get with Kangooroo?

The result files included in the bundle-results folder available for download are:

• 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

NOTE: Trimmed.fastq files and aligned.bam files can be downloaded separately. Please be mindful that depending on the size and number of the files, you may need to purchase additional quotas for download. If this is the case, please contact sales@lexogen.com.