Pinned Repositories
1KGP_dimred
Interactive demonstration of how to use PCA, t-SNE, and UMAP on genotype data from the Thousand Genome Project.
academic-www
📖 Documentation site for Academic Website Builder
anndata
Annotated data.
autodocsumm
Extending your autodoc API docs with a summary
awesome-single-cell
List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
pyGPCCA
pyGPCCA - python GPCCA: Generalized Perron Cluster Cluster Analysis package to coarse-grain reversible and non-reversible Markov state models.
graphtools
Tools for building and manipulating graphs in Python
MELD
Quantifying experimental perturbations at single cell resolution
PHATE
PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
scprep
A collection of scripts and tools for loading, processing, and handling single cell data.
dburkhardt's Repositories
dburkhardt/pyGPCCA
pyGPCCA - python GPCCA: Generalized Perron Cluster Cluster Analysis package to coarse-grain reversible and non-reversible Markov state models.
dburkhardt/academic-www
📖 Documentation site for Academic Website Builder
dburkhardt/anndata
Annotated data.
dburkhardt/cellHarmony-Align
Single-Cell RNA-Seq community alignment function for matching query to reference cells.
dburkhardt/CellOracle
This is the alpha version of the CellOracle package
dburkhardt/cellranger
10x Genomics Single Cell 3' Gene Expression and VDJ Assembly
dburkhardt/dburkhardt.github.io
dburkhardt/diffxpy
Differential expression analysis for single-cell RNA-seq data.
dburkhardt/gruenlab
dburkhardt/library-workshops
dburkhardt/meghna-hugo
Meghna Hugo is a responsive one-page business template built with HTML5/CSS3, Hugo, JavaScript, and JQuery. The template is minimalist, lightweight, and fast loading.
dburkhardt/memory-monitor
Monitors process group memory usage, sends periodic updates and warnings
dburkhardt/misc
Personal scripts
dburkhardt/neurips2021-notebooks
dburkhardt/neurips2021_multimodal_viash
dburkhardt/Palantir
Single cell trajectory detection
dburkhardt/personal_site
📝 Easily create a beautiful website using Academic, Hugo, and Netlify
dburkhardt/prefect
The easiest way to automate your data
dburkhardt/pycisTopic
pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
dburkhardt/scanpy
Single-cell analysis in Python. Scales to >1M cells.
dburkhardt/scenicplus
SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.
dburkhardt/scRNA-tools
Table of software for the analysis of single-cell RNA-seq data.
dburkhardt/sigcom-lincs
Signature Commons LINCS Repo
dburkhardt/single-cell-best-practices
https://www.sc-best-practices.org
dburkhardt/single-cell-tutorial
dburkhardt/SingleCellOpenProblems
Formalizing and benchmarking open problems in single-cell genomics
dburkhardt/starter-hugo-project-documentation
📖 Project Docs / Knowledge Base template for Hugo Website Builder. 创建项目文档
dburkhardt/starter-hugo-research-group
👥 轻松创建研究组或组织网站 Create a stunning Research Group, Team, or Organization Website with Hugo
dburkhardt/starter-research-group
dburkhardt/viash_web