Xiangyu Pan's starred repositories
AddVelocyto
Merge Velocyto Loom into one
trRosetta2
Repository for publicly available deep learning models developed in Rosetta community
insitu_probe_generator
Generate HCR-style Probe Pairs for mRNA visualization
probegenerator
Generate and validate probes for multiplexed RNA-FISH
sc-compReg
R package for single-cell comparative regulatory analysis
human_single_cell
Single cell transcriptome profiling of the human developing spinal cord reveals a conserved genetic programme with human specific features
MouseSpinalCordAtlas
Single-cell RNA-seq analysis from "Single cell transcriptomics reveals spatial and temporal dynamics of gene expression in the developing mouse spinal cord" (2019)
naughty_monkey
Some useful gadgets
published_phylomaps
A Collection of Published Phylostratigraphic Maps and Divergence Maps
stagewiseNN
Constructing developmental tree from scRNA-seq data
LampreyBrainAtlas
A comprehensive single-cell atlas of the sea-lamprey brain.
create_cisTarget_databases
Create cisTarget databases
SCENICprotocol
A scalable SCENIC workflow for single-cell gene regulatory network analysis
Phylostratigraphy
Pipeline for Phylostratigraphy