Pinned Repositories
ACME
This repository contains open-source C++ code for reconstructing membranes from time-lapse confocal/2-photon image data. Please refer to the webpage below for detailed instructions, precompiled binaries, and sample data for testing the code.
celda
Bayesian Hierarchical Modeling for Clustering Single Cell RNA-Seq Data
cellpose
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
Cho_Xi_Seqscope
Seqscope codes
counterfactual_dim_reduction_sc
A novel dimension reduction based on Structural Causal Model (SCM)
dropEst
Pipeline for initial analysis of droplet-based single-cell RNA-seq data
imageclipr
RStudio Addin: Copy Image from Clipboard into RMarkdown .Rmd file
indrops
Pipeline for processing inDrops sequencing data
insitu_probe_generator
Generate HCR-style Probe Pairs for mRNA visualization
LPC-reprogramming
chlee-tabin's Repositories
chlee-tabin/ACME
This repository contains open-source C++ code for reconstructing membranes from time-lapse confocal/2-photon image data. Please refer to the webpage below for detailed instructions, precompiled binaries, and sample data for testing the code.
chlee-tabin/celda
Bayesian Hierarchical Modeling for Clustering Single Cell RNA-Seq Data
chlee-tabin/cellpose
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
chlee-tabin/Cho_Xi_Seqscope
Seqscope codes
chlee-tabin/counterfactual_dim_reduction_sc
A novel dimension reduction based on Structural Causal Model (SCM)
chlee-tabin/dropEst
Pipeline for initial analysis of droplet-based single-cell RNA-seq data
chlee-tabin/imageclipr
RStudio Addin: Copy Image from Clipboard into RMarkdown .Rmd file
chlee-tabin/indrops
Pipeline for processing inDrops sequencing data
chlee-tabin/insitu_probe_generator
Generate HCR-style Probe Pairs for mRNA visualization
chlee-tabin/LPC-reprogramming
chlee-tabin/mtsa-tutorial
chlee-tabin/MAGIC
MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.
chlee-tabin/presto
Fast Wilcoxon and auROC
chlee-tabin/RdPCA
Read-depth aware principal component analysis
chlee-tabin/seurat
R toolkit for single cell genomics
chlee-tabin/SingleR
SingleR: Single-cell RNA-seq cell types Recognition
chlee-tabin/tn_test
post-clustering differential expression test
chlee-tabin/trackhub
chlee-tabin/trackhub2