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single-cell-tutorial

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

single-nuclei-epigenomic-and-transcriptomic-landscape-in-alzheimer-disease

monocle3使用seurat的umap信息

single_cell_atherosclerosis_communications-biology_2022

SCTransform使用较多

singlecellcrc-pipeline

Analytical pipeline of scRNA-seq and spatial transcription datastes of CRC

singlecellglioma-verhaaklab

singlecellrna_melanoma_paper

slice

A method for calculating single cell entropy and reconstructing cell differentiation lineage using single-cell RNA-seq data

spacefold

spacetimegut

Analysis of scRNA-seq and V(D)J data of almost half a million cells from up to five anatomical regions in the developing and up to eleven distinct anatomical regions in healthy pediatric and adult human gut.

spatial_crc_atlas

Code to reproduce results from Heiser, et al. (2023)

spatialbrainagingcell22

spatialmouseatlas2020

Data processing and analysis scripts for our spatial profiling of embryos using seqFISH

speckle

R package for specialised analysis of single cell data

startrac

STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)

stream

STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data

systems-bio-sc-multiomics-2022

Materials for EBI Systems Biology course

tabula-muris

Code and annotations for the Tabula Muris single-cell transcriptomic dataset.

tcr_scrnaseq-ibrutinib

th17_single_cell

tissueimmunecellatlas

tissuemaps

TissueMAPS is a software framework for distributed analysis and interactive visualization of large-scale, high-dimensional microscopy image datasets

training-material

A collection of Galaxy-related training material

transplant_organoid_snrnaseq

trust4

TCR and BCR assembly from RNA-seq data

tumor-immune-cell-atlas

Code repository for the Tumor Immune Cell Atlas (TICA) project

tumor-immunogenicity-score

TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020

txtblog

[知识管理]A simple yet powerful blog system for reading and organizing txt/Markdown/html files, based on PHP.

ulcerative_colitis

uphyloplot2

Draw phylogenetic trees of tumor evolution

vector

Unsupervised Inference of Developmental Directions for Single Cells