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Name: Dan Skelly
Type: User
Company: The Jackson Laboratory
Twitter: genomequant
Location: Bar Harbor, ME
Name: Dan Skelly
Type: User
Company: The Jackson Laboratory
Twitter: genomequant
Location: Bar Harbor, ME
Personal website of Dan Skelly
repo for code to implement allele-specific gene expression model of Skelly et al. 2011 Genome Res https://dx.doi.org/10.1101/gr.119784.110
Utilities for sampling from BAM files. Focused on 10X CellRanger BAMs.
data for study of gene expression of non-myocytes in the heart, Skelly et al. 2018 Cell Reports http://dx.doi.org/10.1016/j.celrep.2017.12.072
repo for setting up a VM to host scRNA-Seq data
repo accompanying Skelly et al. (2020) Cell Stem Cell
data for study of heart gene expression in chronic stress, McLellan and Skelly et al. 2020 Circulation https://doi.org/10.1161/CIRCULATIONAHA.119.045115
Example scripts for working with the condor job submission system
My personal R package
A package containing useful functions for extending the Seurat (https://satijalab.org/seurat/) package for single cell RNA-Seq analysis
Expectation-Maximization algorithm for Allele-Specific Expression
An R interface to enrichR
Example models for Stan
experimental package combining fst files with large 3D genotype probability matrices. Note: Not very useful, doesn't lead to significant speedup!
Genome-wide Efficient Mixed Model Association
Small R package to convert between human and mouse gene orthologs
Simple repo for storing common files used in LaTeX docs
List of mouse scRNA-Seq studies
Test of creating a custom Rmd template
short vignettes for compute tasks I need to refresh occasionally
repo for code to implement private haplotype barcoding
fork of PerocchiLab/ProFAT
R/qtl2 module for QTL analysis, including genome scans
Walkthrough for reference traits method
Single cell analysis tools for expression from RNA-seq in R
repo for scRNA-Seq code
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