A collection of scripts documenting the parameter settings used to apply variant discovery to the exploration of Duodenal Polyposis.
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Updated
Feb 1, 2017 - Perl
A collection of scripts documenting the parameter settings used to apply variant discovery to the exploration of Duodenal Polyposis.
R tools to mine & craft somatic mutations from cancer genomes
Galaxy Tool Shed repositories maintained and developed by the Morin Lab.
accessory scripts for processing varscan somatic/copynumber outputs.
Detect germline or somatic variants from normal or tumour/normal whole-genome, whole exome, or targeted sequencing with high performance computing.
A Haskell script that prepares .tsv files generated from sequencing data analysis for manual review.
A Haskell script for selecting variants from a variant calling format (vcf) file based on variants present in a mgibed file.
A Haskell script that performs basic filtration, using a filtration string, on somatic variant data.
Command-line toolkit for genomic datasets.
A Haskell script for creating input files for bam-readcount from ensembl-vep output and variant-calling format (vcf) files.
Snakemake based workflow for analysis of dnaseq data for calling germline/somatic mutations
Empirical Bayes somatic variant calling
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
An R wrapper for running the SigProfilerPlotting framework
A pipeline for mitochondrial mutation calling
Mutation tree from binary bulk sequencing data
NeuSomatic: Deep convolutional neural networks for accurate somatic mutation detection
highly-efficient & lightweight mutation signature matrix aggregation
Experiments for evaluating SECEDO, clustering tumor cells based on single cell sequencing data
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