Extract tool: 

MutationalPatterns method:




SomaticSignatures Mode:




Input file:
Please find the example upload file in the beginning of this page. 



Group file:
Please find the example upload file in the beginning of this page. 



Species name:  human 

Genome build: 



Email: 

What to analyse:  
analyse SNV
analyse INDEL 

Range of signature number to estimate: 

Optional parameters: 

Analysis samples seperately: 


priorSNV (prior mode):
Please find the example upload file in the beginning of this page. 

priorINDEL (prior mode):
Please find the example upload file in the beginning of this page. 

 
Number of run times: 

Use different scale of Y axis: 


initcc: 

chlist: 

burnin: 

space: 

cpiter: 

seed1: 

seed2: 

matrix of fixed signatures SNV:
Please find the example upload file in the beginning of this page. 



matrix of fixed signatures INDEL:
Please find the example upload file in the beginning of this page. 



nrepeats: 

nboots: 

clusteringMethod:




filterBest_RTOL: 


completeLinkageFlag: 


useMaxMatching: 


filterBestOfEachBootstrap: 


filterBest_nmaxtokeep: 


mut_thr: 


nmfmethod:




removeDuplicatesInCatalogue: 


removeDuplicatesThreshold: 


normaliseCatalogue: 


nboot for signature fitting: 


threshold_percent: 


threshold_pvalue: 


Method for signature fitting:




bf_method:




alpha: 


doRound: 


n_sa_iter: 


COSMIC version: 


Seed file:
Please find the example upload file in the beginning of this page. 



matrix_normalization:




resample: 


nmf init:




nmf_replicates: 


interation times: 


nmf_test_conv: 


nmf_tolerance: 


nnls_add_penalty: 


nnls_remove_penalty: 


de_novo_fit_penalty: 


initial_remove_penalty: 


stability: 


min_stability: 


combined_stability: 


refit_denovo_signatures: 


make_decomposition_plots: 


get_all_signature_matrices: 


precision:




Exome data: 
