sigven

Sigve Nakken's repositories

pcgr

Personal Cancer Genome Reporter (PCGR)

Language:RMIT251 24 147

cpsr

Cancer Predisposition Sequencing Reporter (CPSR)

Language:RNOASSERTION56 7 40

gvanno

Generic human DNA variant annotation pipeline

Language:Python55 7 11

oncoEnrichR

Explore the cancer relevance of your gene list

Language:RMIT49 6 14

vcf2tsvpy

Genomic VCF to tab-separated values

Language:PythonMIT46 5 4

pharmOncoX

Targeted and non-targeted anticancer drugs and drug regimens

Language:RMIT28 20

cacao

Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer

Language:RMIT21 9 3

phenOncoX

Crossmapped phenotype ontologies for the oncology domain

Language:RMIT10 30

geneOncoX

Human gene annotations for the oncology domain

Language:RMIT6 30

cancerHotspots

R data package with mutational hotspots in cancer

Language:RGPL-3.02 20

gwasOncoX

Cancer variant data from genome-wide association studies (GWAS)

Language:R2 20

plsd

Prospective Lynch Syndrome Database (PLSD) - cumulative risk for cancer by age, genetic variant, and gender

Language:R2 20

sv_anno

Processing and annotation of somatic structural variants

Language:Python2 20

epacts-docker

Dockerized version of EPACTS

Language:Dockerfile1 20

gganatogram

Create anatograms using ggplot2

100

gtexRNA

Gene expression retrieval with GTEx API

Language:RNOASSERTION1 30

literatureVault

Biomedical literature reference data for precision cancer medicine

Language:RNOASSERTION1 20

portfolio

🚀 Create a dynamic portfolio by just providing your GitHub username.

Language:JavaScriptMIT1 10

sigven.github.io

Minimal personal website

Language:HTML1 20

vcfhelpR

Functions to order, write and crossmap VCF/BED records in R

Language:RMIT1 30

vcfmerge

MuTect2 + Strelka somatic VCF merger

Language:Python1 2 1

2020plusDocker

Docker set up for https://github.com/KarchinLab/2020plus

Language:Dockerfile020

bioconda-recipes

Conda recipes for the bioconda channel.

Language:ShellMIT010

dnamelt

Software to calculate melting profile for a DNA sequence

Language:PerlGPL-3.0020

GDComics

Retrieval of cancer OMICS data from GDC

Language:RMIT020

opentargets_pp

Pre-processing of target, drug and indication data from raw JSON data downloaded from Open Targets Platform

Language:RMIT020

skywalkR

code for Gogleva et al manuscript

Language:RApache-2.0010