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The Jackson Laboratory
- Bar Harbor, ME
- https://daskelly.netlify.app/
- @genomequant
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notes Public
short vignettes for compute tasks I need to refresh occasionally
HTML UpdatedAug 7, 2024 -
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
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hg2mm Public
Small R package to convert between human and mouse gene orthologs
R Other UpdatedJun 15, 2023 -
earlycross Public
A package containing useful functions for extending the Seurat (https://satijalab.org/seurat/) package for single cell RNA-Seq analysis
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bam_sampling_utils Public
Utilities for sampling from BAM files. Focused on 10X CellRanger BAMs.
Python UpdatedJan 13, 2022 -
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Circulation_2020_heart_AngII Public
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
1 UpdatedMay 31, 2021 -
repo accompanying Skelly et al. (2020) Cell Stem Cell
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fstprobs Public
experimental package combining fst files with large 3D genotype probability matrices. Note: Not very useful, doesn't lead to significant speedup!
R UpdatedJul 26, 2018 -
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example-models Public
Forked from stan-dev/example-modelsExample models for Stan
HTML UpdatedFeb 21, 2018 -
GEMMA Public
Forked from genetics-statistics/GEMMAGenome-wide Efficient Mixed Model Association
C++ GNU General Public License v3.0 UpdatedMay 23, 2017 -
emase Public
Forked from churchill-lab/emaseExpectation-Maximization algorithm for Allele-Specific Expression
Python GNU General Public License v3.0 UpdatedApr 19, 2017 -
scater Public
Forked from davismcc/archive-scaterSingle cell analysis tools for expression from RNA-seq in R
R UpdatedMar 24, 2017 -
qtl2scan Public
Forked from kbroman/qtl2scanR/qtl2 module for QTL analysis, including genome scans
R Other UpdatedMar 22, 2017 -
phb_paper Public
repo for code to implement private haplotype barcoding
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latex-template Public
Simple repo for storing common files used in LaTeX docs
TeX UpdatedNov 22, 2016 -
ase Public
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
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yeast100genomes Public
repository for data from the _Saccharomyces cerevisiae_ 100 genomes project, http://dx.doi.org/10.1101/gr.185538.114
1 UpdatedFeb 15, 2016