sigs_pcawg: Data for PCAWG SNV signatures (COSMIC v3), including...

In YAPSA: Yet Another Package for Signature Analysis

Description

PCAWG_SP_SBS_sigInd_Artif_df: Meta-information for PCAWG_SP_SBS_sigs_Artif_df

PCAWG_SP_SBS_sigs_Real_df: Data frame of only the validated signatures published by Alexandrov et al. (Biorxiv 2018), corresponding to the column 1-26, 28-42 and 44 of the PCAWG_SP_SBS_sigs_Artif_df data frame

PCAWG_SP_SBS_sigInd_Real_df: Meta-information for PCAWG_SP_SBS_sigs_Real_df

PCAWG_SP_ID_sigs_df: Data frame with Indel signatures published by Alexandrov et al. (Biorxiv 2018) which were decomposed with the method SigProfiler. There are 17 Sigantures reported but as supervised signatures are only valid for whole genome sequencing data analysis. In whole genome sequencing data the Indel signature ID15 was not discribed and thus is not part of this data set. In total 83 features are described. The categorization consideres the size of the insertion and delition, the motif, and the sequence context. Hereby the number of repetition or patial repetition of the motif is determined.

PCAWG_SP_ID_sigInd_df: Meta-information for PCAWG_SP_ID_sigs_df

Usage

data(sigs_pcawg)

Author(s)

Lea Jopp-Saile [e-mail]

Source

PCAWG_SNV: https://www.synapse.org/#!Synapse:syn11738319

PCAWG_INDEL: https://cancer.sanger.ac.uk/cosmic/ signatures/ID

References

Alexandrov et al. (Biorxiv 2018)

YAPSA documentation built on Nov. 8, 2020, 4:59 p.m.