Jun Wang's repositories
GNL_Scorer
this is a software for sgRNA activity prediction with great generalization
DeepLocRNA
This is the counterpart of DeepLoc, but in RNA level
Find_cell_marker
This is a software for identifying the cell type for single cell analysing
CRISPR-TRAP-seq
This is a ML learning model to predict the gRNA efficiency of trap-based editing system. eg.ABE, CBE, Cas9
RNA-localization
This repository can be used to data sharing, code sharing, and feedbacks
BERTLocRNA
Using Large language model to predict localization
DeepRNAgenerator
This is used to generate optimized RNA for vaccine design
ABE_CBE_spCas9
Model with great generalization applied in the trap-ABE, trap-CBE, and trap-spCas9
cell2location
Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
CellphoneDB
CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
cytoself
Self-supervised models for encoding protein localization patterns from microscopy images
DNABERT
DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
GNL_script
The script of the paper
graph-part
A biological sequence data partitioning method
hellow-world
this is my first time in github
ichorCNA
Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
IntroToML-scVAE
This is an instruction for scVAE about how it works and how to run the demo scripts
LLMbenchmarking
Benchmarking the language model in genomic and transcriptome level
scDeepCluster
scDeepCluster for Single Cell RNA-seq data
Trap-CRISPR
This is a ML learning model to predict the gRNA efficiency of trap-based editing system. eg.ABE, CBE, Cas9
Trap-seq-Data-Processing
The scripts of score comparison shown in the Trap-seq paper
UHCA
UHCA
Xenium_benchmarking
Code used to benchmark Xenium