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mjakobs's Projects

excavator2_free icon excavator2_free

A modified version of the EXCAVATOR2 copy number caller that can be run from any directory.

hcmm_cnvs icon hcmm_cnvs

HCMMCNVs is a browser-based software for detecting copy number variants (CNVs) using whole exome sequencing (WES) technology.

hcmm_cnvs_wrapper icon hcmm_cnvs_wrapper

This is a fork of lunching/HCMM_CNVs. This code has been edited to include wrapper functions so it can be run as a command line tool rather than a shiny app.

mutationtimer_ppcg icon mutationtimer_ppcg

An fork of the R package to time somatic mutations customised for ppcg consensus files

nf-core_modules icon nf-core_modules

This is a fork of the nf-core/modules repository, which hosts tool-specific module files for the Nextflow DSL2 community!

sarek_custom_cn_ghm icon sarek_custom_cn_ghm

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

singularity-deploy icon singularity-deploy

Build and deploy Singularity containers to GitHub releases, and pull with the singularity-hpc client

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