In steverozen/mSigAct.server: Shiny Server for Analyzing Mutational Signature Activities

knitr::opts_chunk$set(echo = TRUE)

Input
Pre-loaded example spectra
Use which signatures for attribution?
What reference genome to use?
Upload spectra
Show the spectra or start the attribution analysis
Choose cancer type
Add or delete signatures from the analysis?
Look at the mutational signatures under consideration
Start attribution analysis
Examine the analysis results
Attribution for other mutation types

Guide to signature attribution in the mSigAct web server{target="_blank"}

The tab "Signature attribution" provides analytical tools to estimate which mutational signatures have contributed to the mutational spectrum of a single tumor or tissue sample.

The input area for uploading spectra catalogs

You can also analyze spectra catalogs generated from VCFs in the mSigAct web server.

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Pre-loaded example spectra and example spectra catalogs to download then update

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Important: genome or exome data?

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What reference genome to use?

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Upload the spectra from a .csv file

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You can show the spectra or start the attribution analysis

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mSigAct needs to know the cancer type to decide what signatures to consider

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Add or delete signatures from the analysis?

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Look at the mutational signatures under consideration

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Start the analysis

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Examine the analysis results

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Attribution for other mutation types is similar

Here is an analysis of insertion and deletion signature attribution.

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# Define variable containing url for flag counter image
url <- "https://s04.flagcounter.com/count2/S61M/bg_FFFFFF/txt_000000/border_CCCCCC/columns_2/maxflags_10/viewers_0/labels_1/pageviews_1/flags_0/percent_0/"