huidongchen

simba

SIMBA: SIngle-cell eMBedding Along with features

scATAC-benchmarking

Benchmarking computational single cell ATAC-seq methods

STREAM

STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data

Docker_STREAM

The Docker file for STREAM package https://github.com/pinellolab/STREAM

academic-kickstart

Easily create a beautiful website using Academic and Hugo

bioconda-recipes

Conda recipes for the bioconda channel.

bioinformatics_scripts

scripts for bioinformatics analysis

bsub_jupyter

Connect to a LSF main node directly or trough a ssh jump node, launch a jupyter notebook via bsub and open automatically a tunnel. The name of the connection can be used to reestablish the connection later or to terminate it.

GiniClust

GiniClust: Detecting Rare Cell Types from Single-Cell Gene Expression Data with Gini Index

competition

Topcoder single-cell trajectory inference competition

Density_Sampling

For a data-set comprising a mixture of rare and common populations, density sampling gives equal weights to selected representatives of those distinct populations.

elpigraph-python

Python implementation of the ElPiGraph algorithm with multi-cpu and gpu support

Gene_Annotation

Scripts used for obtaining gene annotation file

hs19-var

huidongchen.github.io

personal website https://huidongchen.github.io/

personal_website

PyTorch-BigGraph

Generate embeddings from large-scale graph-structured data.

rpy2-feedstock

A conda-smithy repository for rpy2.

scikit-posthocs

Pairwise Multiple Comparisons Post-hoc Tests

simba_pbg

A customized PyTorch-BigGraph (PBG) package for "simba", modified from https://github.com/facebookresearch/PyTorch-BigGraph

simba_tutorials

Tutorials for SIMBA (https://github.com/huidongchen/simba)

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

TI_competition

Trajectory Inference Competition

TI_STREAM

STREAM repo for Topcoder Single-Cell Trajectory Inference Methods challenge https://www.topcoder.com/lp/single-cell