jamesdalg Goto Github PK

2021-modle-paper-001-data-analysis

Data analysis code for: "MoDLE: High-performance stochastic modeling of DNA loop extrusion interactions": https://doi.org/10.1186/s13059-022-02815-7

bigknock

R package of performing biobank-scale gene-based association test via knockoffs.

cnvscope

CNVScope: Visually Exploring Copy Number Aberrations in Cancer Genomes

cnvscope.github.io

CNVScope Vignette pages

cnvscope_public_data

collepardolab_chromatin_model

Source code for "Nucleosome plasticity is a critical element of chromatin liquid–liquid phase separation and multivalent nucleosome interactions".

data_import_p8105_jld2227

drat

duet

SNP-Assisted SV Calling and Phasing Using ONT

goldfeld_epic_methylation_array_analysis

Project repository for Goldfeld_EPIC_methylation_array_analysis

gs3dkviz

hiclink

HiClink: a scalable, flexible, robust framework for HiC data

hicnv

hmftools

Various algorithms for analysing genomics data

integratedlearner

Integrated Machine Learning for Multi-omics Classification and Prediction

jamesdalg.github.io

lecture2

libwacom

libwacom is a tablet description library

mdanalysis

MDAnalysis is a Python library to analyze molecular dynamics simulations.

mm2-ax

mrtadfinder

a method to identify TADs in Hi-C data

p8105_example_jld2227

p8105_hw1_jld2227

HW1 p8105 jld2227

p8105_hw2_jld2227

p8105_hw3_jld2227

p8105_hw5_jld2227

p8105_hw6_jld2227

pbsv

pbsv - PacBio structural variant (SV) calling and analysis tools

telomererepeatloci

Snakemake workflow for detection of telomere repeat loci from WGS data

tox_data