Report Modules: panoply_mimp_report

panoply_mimp_report

Description

This module creates an interactive R Markdown report of the results of the panoply_mimp module. An interactive table displays the full list of kinase rewiring events identified by MIMP in all samples, followed by two heatmaps: one depicting all kinase rewiring events predicted by MIMP due to missense mutations, and the other summarizing overall altered kinase activity in each sample as predicted by MIMP. Information about phosphorylation-related SNVs (missense mutations in close proximity to phosphosites) detected in the dataset is then summarized, followed by a report of any samples that have amino acid mismatches between the reference amino acid in the mutation data and the amino acid at this position in the fasta sequence input.

Input

Required inputs:

• tar_file: (.tar file) output tar file from panoply_mimp
• output_prefix: (String) prefix used to name the output tar file in panoply_mimp

Output

• report_out: (.html file) Interactive R Markdown report.