Pinned Repositories
academic_website2
Personal website of Dan Skelly
ase
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
CellReports_2018_heart_scRNAseq
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
CellStemCell_2020_diverse_mESCs
repo accompanying Skelly et al. (2020) Cell Stem Cell
Circulation_2020_heart_AngII
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
earlycross
A package containing useful functions for extending the Seurat (https://satijalab.org/seurat/) package for single cell RNA-Seq analysis
phb_paper
repo for code to implement private haplotype barcoding
single_cell_RNAseq
repo for scRNA-Seq code
yeast100genomes
repository for data from the _Saccharomyces cerevisiae_ 100 genomes project, http://dx.doi.org/10.1101/gr.185538.114
daskelly's Repositories
daskelly/CellReports_2018_heart_scRNAseq
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
daskelly/phb_paper
repo for code to implement private haplotype barcoding
daskelly/ase
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
daskelly/earlycross
A package containing useful functions for extending the Seurat (https://satijalab.org/seurat/) package for single cell RNA-Seq analysis
daskelly/single_cell_RNAseq
repo for scRNA-Seq code
daskelly/CellStemCell_2020_diverse_mESCs
repo accompanying Skelly et al. (2020) Cell Stem Cell
daskelly/Circulation_2020_heart_AngII
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
daskelly/yeast100genomes
repository for data from the _Saccharomyces cerevisiae_ 100 genomes project, http://dx.doi.org/10.1101/gr.185538.114
daskelly/academic_website2
Personal website of Dan Skelly
daskelly/bam_sampling_utils
Utilities for sampling from BAM files. Focused on 10X CellRanger BAMs.
daskelly/cells_server
repo for setting up a VM to host scRNA-Seq data
daskelly/condor-examples
Example scripts for working with the condor job submission system
daskelly/das
My personal R package
daskelly/emase
Expectation-Maximization algorithm for Allele-Specific Expression
daskelly/enrichR
An R interface to enrichR
daskelly/example-models
Example models for Stan
daskelly/fstprobs
experimental package combining fst files with large 3D genotype probability matrices. Note: Not very useful, doesn't lead to significant speedup!
daskelly/GEMMA
Genome-wide Efficient Mixed Model Association
daskelly/hg2mm
Small R package to convert between human and mouse gene orthologs
daskelly/latex-template
Simple repo for storing common files used in LaTeX docs
daskelly/mouse_scRNAseq
List of mouse scRNA-Seq studies
daskelly/mytemplates
Test of creating a custom Rmd template
daskelly/notes
short vignettes for compute tasks I need to refresh occasionally
daskelly/ProFAT
fork of PerocchiLab/ProFAT
daskelly/qtl2scan
R/qtl2 module for QTL analysis, including genome scans
daskelly/reference_traits
Walkthrough for reference traits method
daskelly/scater
Single cell analysis tools for expression from RNA-seq in R
daskelly/single_cell_emase
daskelly/torque-examples
daskelly/who_data_obesity