Meijian

Translational Data Scientist

Pinned Repositories

ampad-DiffExp
Code base for performing covariate adjustments and differential expression analysis of the RNAseq data from AMP-AD.
Language:R0 0 00
AUCell
AUCell: score single cells with gene regulatory networks
Language:R0 0 00
BEDs
Bagging Ensemble Deep Segmentation for Nucleus Segmentation with Testing Stage Stain Augmentation
Language:Python0 0 00
bhtsne
Barnes-Hut t-SNE
Language:C++0 2 00
BioGPT
Language:Python0 0 00
CellChat
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
Language:R0 1 00
cellphonedb
Language:Python00
ComBat-seq
Batch effect adjustment based on negative binomial regression for RNA sequencing count data
Language:R0 1 00
Genetic-Algorithm-and-Machine-learing
The objective of this study is to develop a GA-based approach, utilizing a feedback linkage between feature selection and classification.
Language:Python1 2 11
slideflow
Deep learning pipeline for digital pathology, with both Tensorflow and PyTorch support.
Language:Python1 0 00

Meijian's Repositories

Meijian/slideflow
Deep learning pipeline for digital pathology, with both Tensorflow and PyTorch support.
Language:Python1 0 00
Meijian/AUCell
AUCell: score single cells with gene regulatory networks
Language:R0 0 00
Meijian/BioGPT
Language:Python0 0 00
Meijian/cellphonedb
Language:Python00
Meijian/DeepPATH
Classification of Lung cancer slide images using deep-learning
Language:Python0 0
Meijian/diceR
Diverse Cluster Ensemble in R
Language:R0 0
Meijian/digit-path
Language:Python1 0
Meijian/GATE
Language:C++0 0
Meijian/HE2RNA_code
Train a model to predict gene expression from histology slides.
Language:Python0 0
Meijian/hover_net
Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.
Language:Python0 0
Meijian/IBDTherapyResponsePaper
Analyses and code associated with https://doi.org/10.1038/s41591-021-01520-5
Language:Jupyter Notebook0 0
Meijian/metacells
Metacells - Single-cell RNA Sequencing Analysis
Meijian/onek1k_phase1
Contains code to analyze the OneK1K data and perform eQTL mapping of 14 cell types
Language:R0 0
Meijian/openslide
C library for reading virtual slide images
Meijian/pagoda2
R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
Meijian/PathFinder
Language:Jupyter Notebook0 0
Meijian/PathomicFusion
Fusing Histology and Genomics via Deep Learning - IEEE TMI
Language:Jupyter Notebook0 0
Meijian/pgx
Language:Python1 0
Meijian/picard
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
Language:Java0 0
Meijian/plip
Pathology Language and Image Pre-Training (PLIP) is the first vision and language foundation model for Pathology AI. PLIP is a large-scale pre-trained model that can be used to extract visual and language features from pathology images and text description. The model is a fine-tuned version of the original CLIP model.
Language:Python0 0
Meijian/QuASI
List of QuPath scripts for alignment and stain deconvolution of whole-slide histology images
Language:Groovy0 0
Meijian/RNASequest
Language:R0 0
Meijian/rtools
Language:R1 0
Meijian/SCINA
SCINA: A Semi-Supervised Subtyping Algorithm of Single Cells and Bulk Samples
Language:R0 0
Meijian/stylegan3
Official PyTorch implementation of StyleGAN3
Meijian/tensorqtl
Ultrafast GPU-based QTL mapper
Language:Python0 0
Meijian/toobox
Language:Python1 0
Meijian/tutorials
MONAI Tutorials
Language:Jupyter Notebook0 0
Meijian/UNI
Towards a general-purpose foundation model for computational pathology - Nature Medicine
Language:Jupyter Notebook0 0
Meijian/valis
Virtual Alignment of pathoLogy Image Series
Language:Python0 0