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    16 repositories

    • gaiaAssociation

      Public
      gaiaAssociation is a tool to detect the cell specific enrichment of loci in regulatory regions through the sum of non-identical binomials
      enrichmentgeneticsnext-generation-sequencinggwas-toolsopen-chromatin-regions
      Python
      •
      MIT License
      •1•3•0•0•Updated Sep 12, 2024Sep 12, 2024

    • gaiaAssociation-Example-Guide

      Public
      A jupyter notebook and collected dataset assembled to help users learn gaiaAsscoiation (https://github.com/GreallyLab/gaiaAssociation) and RLEA analysis.
      HTML
      •0•2•0•0•Updated Sep 12, 2024Sep 12, 2024

    • TBT_Genomic_Analyses_TVTetal_2022

      Public
      this github has my annotated markdown with all of the scripts that were run to generate the data and images in the paper.
      R
      •0•0•0•0•Updated Jun 24, 2022Jun 24, 2022

    • Toxo_2022

      Public
      Code used for Toxoplasma gondii infection of human cell project completed by Ronnie Cutler, Reanna Dona and Netha Ulahannan
      HTML
      •0•0•0•0•Updated Apr 21, 2022Apr 21, 2022

    • Johnston_Simoes-Pires_et_al_2020

      Public
      A repository for the code used for the analysis within the paper "Transient side effects of CRISPR/Cas9-VP160 for gene activation"
      HTML
      •0•0•0•0•Updated Apr 2, 2020Apr 2, 2020

    • Rastogi_et_al_2019

      Public
      Custom code used to analyze data and generate figures within "Genomic insights into the pediatric obese asthma phenotype reveal a shift to memory T cells and cellular reprogramming targeting Rho GTPase pathways."
      HTML
      •0•1•0•0•Updated Mar 17, 2020Mar 17, 2020

    • BAARMY

      Public
      This repo is for all code used to develop the Slinky R package during the Einstein Hackathon
      R
      •
      GNU General Public License v3.0
      •0•3•0•0•Updated May 15, 2019May 15, 2019

    • PBMC_Kong_2017

      Public
      Insights from deconvolution of cell subtype proportions enhance the interpretation of functional genomic data.
      CSS
      •2•1•0•0•Updated Aug 23, 2018Aug 23, 2018

    • Johnston_et_al

      Public
      A repository for the code used for the analysis within the paper "Fucntional genetic variants mediate their regulatory effects through altered transcription factor binding."
      R
      •0•0•0•0•Updated Aug 17, 2018Aug 17, 2018

    • MADSEQ

      Public
      Detecting, quantifying and discriminating the mechanism of mosaic chromosomal aneuploidies using MAD-seq
      R
      •0•0•0•0•Updated Apr 6, 2018Apr 6, 2018

    • SMITE

      Public
      This repo contains the R package SMITE.
      R
      •1•1•4•0•Updated Mar 27, 2017Mar 27, 2017

    • Ulahannan-et-al.-2016

      Public
      Shell
      •0•0•0•0•Updated Aug 16, 2016Aug 16, 2016

    • HCV_Wijetunga_et_al_2016

      Public
      Code used to create figures in the 2016 paper A pre-neoplastic epigenetic field defect in HCV-infected liver at transcription factor binding sites and polycomb targets.
      R
      •0•0•0•0•Updated May 30, 2016May 30, 2016

    • PE_Suzuki_et_al_2016

      Public
      codes used for "Amnion as a surrogate tissue reporter of the effects of maternal preeclampsia on the fetus."
      0•1•0•0•Updated Apr 4, 2016Apr 4, 2016

    • SMITEdatasets

      Public
      Here is a repository of publicly available test datasets
      0•0•0•0•Updated Jul 20, 2015Jul 20, 2015

    • Nadel-et-al.-2015

      Public
      Perl
      •0•3•0•0•Updated May 20, 2015May 20, 2015