whtns

chevreul

Set of tools for interacting with seurat objects as projects

single-cell-tools

tools for pseudotime by cluster centroids and dimension reduciton

2024-08-02-CHLA

test training site

ARMOR

Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data

ARMOR_GTO

chevreuldata

retinaCobrinik

BentoBox

biocTest

a test bioconductor package

copykat

CopyscAT

Inferring CNV data from single cell ATAC seq

draft_issues

a place to collect draft issues

external_rb_scrnaseq

infercnv

Inferring CNV from Single-Cell RNA-Seq

InteractiveComplexHeatmap

Make Interactive Complex Heatmaps

iSEE

R/shiny interface for interactive visualization of data in SummarizedExperiment objects

ksmisc

megadepth

R interface to megadepth: BigWig and BAM related utilities

monocle3

notes

numbat

Haplotype-aware CNV analysis from scRNA-Seq

numbat_old

numbat_workflow

ocular_transcriptomes_pipeline

A Snakemake pipeline for constructing de novo*transcriptomes from the EiaD dataset

PlotCNV

An R package to create a pretty Copy Number Variant plot from a segments file

rb_exome

scenic_src

a portable repo for running the scenic protocol

shinyproxy

snakemake_template

A small template to ease setting up new Snakemake workflows capable of submitting jobs to a Slurm cluster such as phoenix.

stchlk_distill

usespandas

An example R package, using Config/reticulate to ensure 'pandas' is installed on load.