Outputs

WOLAND provide different set of outputs depending on the script used - and how far you want to go in your mutational pattern analysis. woland-batch.pl runs the most complete analysis but you must have at least two groups of samples (a control and a treated group, for example).

Note

woland-batch.pl provides the faster and straighforward way to analyze samples. It runs woland-anno.pl for each sample then runs woland-report.pl.

woland-anno.pl basic outputs

This script will analyze each ANNOVAR variant_function files and will provide a total of 13 tabular text files + 1 log file. We consider these output files as the most raw type of WOLAND analysis. Let’s take a look at each class and its output files explanations:

Note

All woland-anno.pl outputs were saved in a results-$sample_name/ folder.

Nucleotide type-changes and frequency

WOLAND-basechange-$sample_name:

WOLAND-mutfreq-$sample_name:

Extracted context sequences

WOLAND-contextsequences-$sample_name:

WOLAND-contextsequencesanno-$sample_name:

Hotspots

WOLAND-hotspots-$sample_name:

Mutational motifs

WOLAND-motifs-$sample_name:

WOLAND-norm_motifs-$sample_name:

Transcriptional strand bias

WOLAND-bias_motif-$sample_name: