zhisonghe

iTracer_analysis

Scripts to analyze iTracer data

Pando

Multiome GRN inference.

primate_cerebral_organoids

Reusable scripts and functions archive for the paper "Organoid single-cell genomic atlas uncovers human-specific features of brain development" (https://www.nature.com/articles/s41586-019-1654-9)

RNAseq_tutorial

scRNAseq_analysis_vignette

Tutorial for scRNA-seq data analysis beginners using R

scRNAseq_comparison_vignette

Tutorial of condition comparison analysis of scRNA-seq data

simspec

Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)

HiTSeq

A Java package to process data from high-throughput sequencing assays

neuMatIdx

The R package to estimate neuron maturity index, a series of scores representing maturity states of homogeneous neuronal samples (e.g. single neurons), given the gene expression information by RNA-sequencing (in FPKM).

TOMRwModule

A network module identification procedure by considering node weights. Originally designed for protein-protein network module identification by combining differential expression information of genes

zhisonghe/HiTSeq

A Java package to process data from high-throughput sequencing assays

zhisonghe/neuMatIdx

The R package to estimate neuron maturity index, a series of scores representing maturity states of homogeneous neuronal samples (e.g. single neurons), given the gene expression information by RNA-sequencing (in FPKM).

zhisonghe/TOMRwModule

A network module identification procedure by considering node weights. Originally designed for protein-protein network module identification by combining differential expression information of genes