GitHub / stephaniehicks
Total Commits: 2,028
stephaniehicks/jhustatcomputing2022
Course website for Johns Hopkins BSPH Statistical Computing (Biostatistics 140.776) in Fall 2022
Commits: 118
stephaniehicks/jhustatcomputing2021
Course website for JHSPH Statistical Computing (Biostatistics 140.776) in Fall 2021
Commits: 100
stephaniehicks/benchmark-hdf5-clustering
Benchmarking project for scalable clustering algorithms with large observations and HDF5 files
Commits: 68
stephaniehicks/stephanie-hicks-cv
Commits: 64
stephaniehicks/quantify-snrna
Commits: 50
stephaniehicks/bioconductornotes
My notes/usage examples for various Bioconductor packages
Commits: 46
stephaniehicks/scrna-kulkarni-macrophages
Project with Kulkarni lab to analyzing scRNA-seq macrophages in mouse
Commits: 39
stephaniehicks/methylccpaper
This repository contains the additional material and scripts for the manuscript titled 'Technology-independent estimation of cell type composition using differentially methylated regions'
Commits: 38
stephaniehicks/qsmooth
Smooth quantile normalization (qsmooth) is a generalization of quantile normalization, which is an average of the two types of assumptions about the data generation process: quantile normalization and quantile normalization between groups.
Commits: 30
stephaniehicks/qsmoothpaper
This repository contains the additional material and scripts for the manuscript titled 'Smooth Quantile Normalization'
Commits: 28
stephaniehicks/bodymaprat
This package contains a SummarizedExperiment object from the Yu et al. (2014) paper that performed the rat BodyMap across 11 organs and 4 developmental stages. PMID: 24510058
Commits: 26
opencasestudies/opencasestudies.github.io
Commits: 24
opencasestudies/ocs-bp-air-pollution
Commits: 21
stephaniehicks/quantro
quantro: Bioconductor package to test for global normalization assumptions
Commits: 20
stephaniehicks/cshlgsd2022
Course material from Stephanie Hicks for CSHL Genome Scale Data 2022
Commits: 20
stephaniehicks/methylCC
R/BioC package to estimate the cell composition of whole blood in DNA methylation samples in microarray or sequencing platforms
Commits: 18
stephaniehicks/learnpython
A tutorial on learning the basics of programming in Python and performing data analysis in Python
Commits: 18
drisso/mbkmeans
Commits: 16
stephaniehicks/superwomen
Children's book titled Super Women: Growing Up to be Statisticians and Data Scientists
Commits: 16
stephaniehicks/benchmark-bioc-large-data
Commits: 16
stephaniehicks/benchmark-kmeans
Repository to benchmark k-means using HDF5 files using (1) sci-kit learn in Python and (2) BiocSklearn in R/Bioconductor
Commits: 16
bioconductor-source/qsmooth
Commits: 15
stephaniehicks/flowsorted.blood.wgbs.blueprint
A Bioconductor ExperimentHub data package for flow sorted purified whole blood cell types measured using DNA methylation on WGBS platform from BLUEPRINT
Commits: 14
stephaniehicks/cshlcg2022
Course material from Stephanie Hicks for CSHL Computational Genomics 2022 course
Commits: 12
stephaniehicks/benchmarkfdrdata2019
Data and Benchmarking Results from Korthauer and Kimes et al. (2019)
Commits: 10
stephaniehicks/benchmarkfdrdata2019
Data and Benchmarking Results from Korthauer and Kimes et al. (2019)
Commits: 10
bioconductor-source/quantro
Commits: 10
stephaniehicks/projects_kulkarni
projects with Subhash Kulkarni at JHU School of Medicine
Commits: 10
stephaniehicks/cshlcg2023
Course material from Stephanie Hicks for CSHL Computational Genomics 2023
Commits: 9
kstreet13/scry
Commits: 9
ntdyjack/fasthplus
Commits: 9
stephaniehicks/githubpages_tutorial
A tutorial on setting up websites with GitHub Pages using jekyll
Commits: 8
cs109/2014_data
Commits: 8
stephaniehicks/2018-bioinfosummer-scrnaseq
Commits: 8
stephaniehicks/backgroundexperimentyeast
Gene expression experiment to measure NSB and optical noise in yeast
Commits: 8
stephaniehicks/hickslab_handbook
Onboarding for joining Stephanie Hicks's Lab at Johns Hopkins SPH
Commits: 8
bioc/tenxpbmcdata
Commits: 6
bioconductor-source/tenxpbmcdata
Commits: 6
stephaniehicks/atlasscalespatialclustering
Commits: 6
CambridgeCat13/SpatialArtifacts
Commits: 6
stephaniehicks/hansen-hicks-professional-development
Repository presentations and links to resources for professional development from joint lab meeting between Kasper Hansen (https://www.hansenlab.org) and Stephanie Hicks (https://www.stephaniehicks.com)
Commits: 6
genomicsclass/colonCancerWGBS
Commits: 6
stephaniehicks/quantrodemo
Commits: 5
stephaniehicks/large-scale-data-base
Base Rmd files for Orchestrating Large-Scale Data Analysis in Bioconducotr
Commits: 5
stephaniehicks/quantrodemo
Commits: 5
stephaniehicks/biostat776-intro-stephanie-hicks
Website for Stephanie Hicks in Biostatistics 776
Commits: 4
stephaniehicks/nihexploredata
Explores this data: https://exporter.nih.gov/ExPORTER_Catalog.aspx
Commits: 4
stephaniehicks/biocdemo
Commits: 4
amcdavid/UMI_variation
Commits: 4
stephaniehicks/scrnaseqhumanmarinovsplitpool
Single cell and bulk RNA-Seq split/pool data from Marinov et al. (2014)
Commits: 4
stephaniehicks/jhuquantneuro2022
Course materials for the JHU Quantitative molecular neuroscience Fall 2022 course (ME.440.825.0001.FA22) from Stephanie Hicks
Commits: 3
stephaniehicks/quantrosim
Commits: 3
stephaniehicks/singlecelldemo
Commits: 3
stephaniehicks/jhuquantneuro2022
Course materials for the JHU Quantitative molecular neuroscience Fall 2022 course (ME.440.825.0001.FA22) from Stephanie Hicks
Commits: 3
lmweber/deconvolution-papers
Commits: 3
lmweber/locus-c
Commits: 3
r-universe/bioc
Commits: 3
anilbey/awesome-single-cell
Commits: 2
stephaniehicks/scgenenetworks
Commits: 2
stephaniehicks/unixnotes
Commits: 2
stephaniehicks/biostat776-stephanie
Commits: 2
stephaniehicks/spatialexperiment-analysis
repo to explore spatial data in R/Bioconductor and Python
Commits: 2
PyDataMCR/starter-kit
Commits: 2
stephaniehicks/biostat776-stephanie
Commits: 2
stephaniehicks/test_website_3
Commits: 2
stephaniehicks/test_website
Commits: 2
stephaniehicks/dahlin_2018
Commits: 2
stephaniehicks/forfrank
Commits: 2
seandavi/awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
Commits: 2
stephaniehicks/greetings
Commits: 2
cu-dbmi/awesome-single-cell
Commits: 2
csoneson/spatialexperiment-analysis
Commits: 1
genesofeve/projectR
Commits: 1
metamaden/lute
Commits: 1
kdkorthauer/dmrseq
Commits: 1
bioconductor/biocworkinggroups
Bioconductor working group guidelines. Also, a list of active, suggested, and inactive working groups for bioconductor for the community to volunteer to be apart of. The community is also welcome to suggest new working groups.
Commits: 1
opencasestudies/old-ocs-bp-right-to-carry
Commits: 1
stephaniehicks/postmut
Perl and R tool to combine functional predictions from SIFT, PolyPhen-2 and Xvar
Commits: 1
stephaniehicks/biocverse
project to create an interactive data viz of the biocoductor ecosystem
Commits: 1
stephaniehicks/new-course
Skeleton course website available to initialize future courses.
Commits: 1