Pinned Repositories
akt1
companion code for article "AKT mutant allele-specific activation dictates pharmacologic sensitivities"
bangle.js
Programs for bangle.js v2 (mainly to learn javascript)
cancer_genomics_workshop
cnv_trees
demonstration repo
facets
Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
facets-suite
Utility functions for FACETS
hotspot_annotator
Annotate MAF data.frame with mutational hotspots
MtVariantPipeline
NGS-scripts
scripts for preprocessing low-coverage WGS data, generating allele-specific copy number data for multi-region tumor samples, and using these for phylogenetic analyses
Nvim-R
Vim plugin to work with R
agorelick's Repositories
agorelick/cnv_trees
demonstration repo
agorelick/hotspot_annotator
Annotate MAF data.frame with mutational hotspots
agorelick/NGS-scripts
scripts for preprocessing low-coverage WGS data, generating allele-specific copy number data for multi-region tumor samples, and using these for phylogenetic analyses
agorelick/akt1
companion code for article "AKT mutant allele-specific activation dictates pharmacologic sensitivities"
agorelick/bangle.js
Programs for bangle.js v2 (mainly to learn javascript)
agorelick/cancer_genomics_workshop
agorelick/facets
Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
agorelick/facets-suite
Utility functions for FACETS
agorelick/MtVariantPipeline
agorelick/Nvim-R
Vim plugin to work with R
agorelick/peritoneal_metastasis
agorelick/pi3k
agorelick/polyG
agorelick/polyGsim
Simulate random multi-sample coalescence trees and corresponding poly-guanine genotypes
agorelick/QDNAseq.hg19
QDNAseq.hg19 with added MT (MT sequence/data based on hg38)
agorelick/QDNAseq.hg38.withMT
QDNAseq bin annotation for hg38 (with MT/chrM added)
agorelick/QDNAseqMT
QDNAseq package for Bioconductor (fork to enable retaining chrM/MT)
agorelick/rds
Root diversity score (RDS)
agorelick/sequencing_tools
scripts/workflow for processing sequencing data on Stanford's Sherlock HPC