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Achievement: Arctic Code Vault ContributorAchievement: Pull Shark

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  • academic_website2 Public

    Personal website of Dan Skelly

    SCSS Updated Aug 15, 2024

  • test Public

    Updated Aug 13, 2024

  • notes Public

    short vignettes for compute tasks I need to refresh occasionally

    HTML Updated Aug 7, 2024

  • CellReports_2018_heart_scRNAseq Public

    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

    4 1 Updated Jul 16, 2024

  • hg2mm Public

    Small R package to convert between human and mouse gene orthologs

    R Other Updated Jun 15, 2023

  • earlycross Public

    A package containing useful functions for extending the Seurat (https://satijalab.org/seurat/) package for single cell RNA-Seq analysis

    R 3 Updated Feb 9, 2023

  • who_data_obesity Public

    R Updated Jan 16, 2023

  • single_cell_emase Public

    Python Updated Jan 18, 2022

  • bam_sampling_utils Public

    Utilities for sampling from BAM files. Focused on 10X CellRanger BAMs.

    Python Updated Jan 13, 2022

  • mytemplates Public

    Test of creating a custom Rmd template

    R Updated Jul 17, 2021

  • single_cell_RNAseq Public

    repo for scRNA-Seq code

    R 2 Updated Jul 2, 2021

  • 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 Updated May 31, 2021

  • CellStemCell_2020_diverse_mESCs Public

    repo accompanying Skelly et al. (2020) Cell Stem Cell

    R 1 Updated Jan 13, 2021

  • das Public

    My personal R package

    R Updated Oct 20, 2020

  • reference_traits Public

    Walkthrough for reference traits method

    HTML Updated May 19, 2020

  • cells_server Public

    repo for setting up a VM to host scRNA-Seq data

    Updated Dec 5, 2018

  • fstprobs Public

    experimental package combining fst files with large 3D genotype probability matrices. Note: Not very useful, doesn't lead to significant speedup!

    R Updated Jul 26, 2018

  • ProFAT Public

    Forked from PerocchiLab/ProFAT

    fork of PerocchiLab/ProFAT

    R Updated Jun 14, 2018

  • enrichR Public

    Forked from wjawaid/enrichR

    An R interface to enrichR

    R Updated May 3, 2018

  • mouse_scRNAseq Public

    List of mouse scRNA-Seq studies

    1 Updated Apr 30, 2018

  • example-models Public

    Forked from stan-dev/example-models

    Example models for Stan

    HTML Updated Feb 21, 2018

  • GEMMA Public

    Forked from genetics-statistics/GEMMA

    Genome-wide Efficient Mixed Model Association

    C++ GNU General Public License v3.0 Updated May 23, 2017

  • emase Public

    Forked from churchill-lab/emase

    Expectation-Maximization algorithm for Allele-Specific Expression

    Python GNU General Public License v3.0 Updated Apr 19, 2017

  • scater Public

    Forked from davismcc/archive-scater

    Single cell analysis tools for expression from RNA-seq in R

    R Updated Mar 24, 2017

  • qtl2scan Public

    Forked from kbroman/qtl2scan

    R/qtl2 module for QTL analysis, including genome scans

    R Other Updated Mar 22, 2017

  • phb_paper Public

    repo for code to implement private haplotype barcoding

    Python 3 Updated Mar 20, 2017

  • torque-examples Public

    Shell Updated Mar 20, 2017

  • latex-template Public

    Simple repo for storing common files used in LaTeX docs

    TeX Updated Nov 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

    R 2 9 MIT License Updated Jun 16, 2016

  • yeast100genomes Public

    repository for data from the _Saccharomyces cerevisiae_ 100 genomes project, http://dx.doi.org/10.1101/gr.185538.114

    1 Updated Feb 15, 2016