Pinned Repositories
chevreuldata
Retinal scRNA-seq datasets from the Cobrinik lab at CHLA for processing and visualization using Chevreul
chevreulPlot
Plotting of full-length scRNA-seq as SingleCellExperiments
chevreulProcess
Processing of full-length scRNA-seq as SingleCellExperiments
chevreulShiny
Interactive eda of full-length scRNA-seq as SingleCellExperiments
seuratTools
Processing, plotting, and interactive eda of full-length scRNA-seq as seurat objects
2024-08-02-CHLA
test training site
561_paper
ARMOR
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
shinyflipbookr
single-cell-tools
tools for pseudotime by cluster centroids and dimension reduciton
whtns's Repositories
whtns/single-cell-tools
tools for pseudotime by cluster centroids and dimension reduciton
whtns/2024-08-02-CHLA
test training site
whtns/ARMOR
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
whtns/ARMOR_GTO
whtns/BentoBox
whtns/biocthis
Automate package and project setup for Bioconductor packages
whtns/copykat
whtns/CopyscAT
Inferring CNV data from single cell ATAC seq
whtns/draft_issues
a place to collect draft issues
whtns/external_rb_scrnaseq
whtns/infercnv
Inferring CNV from Single-Cell RNA-Seq
whtns/InteractiveComplexHeatmap
Make Interactive Complex Heatmaps
whtns/iSEE
R/shiny interface for interactive visualization of data in SummarizedExperiment objects
whtns/ksmisc
whtns/megadepth
R interface to megadepth: BigWig and BAM related utilities
whtns/monocle3
whtns/notes
whtns/numbat
Haplotype-aware CNV analysis from scRNA-Seq
whtns/numbat_old
whtns/numbat_workflow
whtns/ocular_transcriptomes_pipeline
A Snakemake pipeline for constructing de novo*transcriptomes from the EiaD dataset
whtns/PlotCNV
An R package to create a pretty Copy Number Variant plot from a segments file
whtns/rb_exome
whtns/scenic_src
a portable repo for running the scenic protocol
whtns/shinyproxy
whtns/snakemake_template
A small template to ease setting up new Snakemake workflows capable of submitting jobs to a Slurm cluster such as phoenix.
whtns/stchlk_distill
whtns/usespandas
An example R package, using Config/reticulate to ensure 'pandas' is installed on load.
whtns/whtns.r-universe.dev
r-universe personal r package archive
whtns/workshop-rinpharma24-shinylive-app