starxian Goto Github PK

3d_imc_publication

acdc_tutorial

airlab

analyze_cytof_using_seurat

Cytometry by time-of-flight(CyTOF) data is very useful in studying the presence/absence of antigens/surface markers at single cell level. There are multiple tools to analyze CyTOF data but here I am presenting a tutorial of how one can quickly use Seurat (R package for scRNA-Seq analysis) for analyzing CyTOF data and understand the cellular and phenotypic diversity

ark-analysis

Integrated pipeline for multiplexed image analysis

awesome-single-cell

List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

balagan

Package for analysis and experimental design of multiplexed imaging data

bead-normalization

bead-based normalization of mass cytometry data

beautiful-visualization-with-r

《R语言数据可视化之美》配套代码

bigscale

An Analytical Framework for Big-Scale Single Cell Data

bindsc

Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and CyTOF data

bioinformatics123

capx

Cytometry analysis pipeline for large and complex datasets (CAPX) (beta)

carsten_cytof_code

catalyst

Cytometry dATa anALYsis Tools

cellcnn

Representation Learning for detection of phenotype-associated cell subsets

cellpose

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

cellseg

cellsegmentation

Matlab code for cell segmentation of multiplexed imaging data

chinese-pangenome-consortium-phase-i

cisa

Computational Immune Synapse Analysis

citrus

Citrus Development Code

clij2

GPU-accelerated image processing for everyone

clustering-workplace

A gui for running different K-Means clustering techniques on benchmark datasets

compare

An ultra-fast similarity measurement and clustering algorithm. It precisely measures similarity between datasets with any number of dimensions and observations with no need for dimension reduction or downsampling.

corrplot

A visual exploratory tool on correlation matrix

countnuclei

Modified Itcn plugin for ImageJ

csbb-shiny

Computational Suite for Bioinformaticians and Biologists (CSBB) is a RShiny application developed with an intention to empower researchers from wet and dry lab to perform downstream Bioinformatics analysis

cubert

How to make those 3D data visualizations

cyanus

A Systematic Comparison of Differential Analysis Methods for CyTOF Data & CYANUS App