shaghayeghsoudi Goto Github PK

2020-epigenetics_workshop

ATAC-Seq, ChIP-Seq, and whole genome bisulfite! An introduction to analyzing some of the most popular types of epigenetic data.

ag1000g-phase1-vgsc-report

battenberg

Battenberg R package for subclonal copynumber estimation

battenberg_customized

customized version of Battenberg which includes min and max rho desired ranges and subsequent R script modifications

bds-files

Supplementary files for my book, "Bioinformatics Data Skills"

bioinformatics_tutorials

biol525d

Course material for UBC Biol525D

ccsmeth

Detecting DNA methylation from PacBio CCS reads

dndscv

dN/dS methods to quantify selection in cancer and somatic evolution

dpclust

Dirichlet Process based methods for subclonal reconstruction of tumours

dpclust3p

Dirichlet Process Clustering Pre-Processing Pipeline

dpclust3p_customised

eclipse

epigenomics

Sarcoma epigenomics projects

evolution

Code accompanying The Evolutionary history of 2,658 cancers

fastqcr

fastqcr: Quality Control of Sequencing Data

genomics_of_adaptation_a.aegypti_scripts

gwas_scripts

Scripts for running GWAS analysis and visualizing the results

helianthus_gwas_convergence_scripts

all scripts for GWAS and convergence analysis in wild sunflowers

lcr-modules

Collection of standard analytical pipelines for genomic and transcriptomic data

long-read-sequencing

This repository contain pipelines and scripts for analyzing long-read sequencing data

mazebox_legacy

A suite of tools for Archetype Analysis, plasticity calculations, and visualization applied to SCLC single cell data.

mol_time

R function for calculating the timing of DNA aberration events from NGS data.

molecular_time

molecular_time_customized

mutationtimer

An R package to time somatic mutations

ompi

Open MPI main development repository

pcawg11-timing_and_signatures

Code for mutational timing of gains and signatures analysis

reconplot

sarcome_evolution