I have run CREST on all samples. See notebook for details.

Running CREST

The results were full of noise, i needed to postprocess them. See notebook for details and results.

Postprocessing and results

I have run CREST on all samples. See notebook for details.

Running CREST

The results were full of noise, i needed to postprocess them. See notebook for details and results.

Postprocessing and results

False positive mutations in Varscan

Indel proximity filtering test in DS014

IGV+pileup of strong SNPs in Sample4 IGV+pileup of strong SNPs in DS14

SNP spectra using varscan

Running varscan on all samples Varscan somatic filter bug

Phylogeny tree construction based on SNPs

Sub page

wt brca1 homo

het positions mpileup low frequency positions mpileup

html notebook raw notebook

html notebook raw notebook

WT vs all mutations Pileup and List creation Varscan test version 0.1