Single cell analysis in the browser

main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datasets, http://cellbrowser.rtfd.org

Spatial omics analysis toolbox

Awesome list of tools and methods to perform spatial transcriptomic data analysis.

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

Bring your single-cell data to life

An introduction to deepcell and deep learning

Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics

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

Genome Annotation Library - A perl toolkit for working with SO compliant genome annotations

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

SCINA: A Semi-Supervised Subtyping Algorithm of Single Cells and Bulk Samples

Spatial transcriptomics of heart tissue

Scripts to run and benchmark scRNA-seq cell cluster labeling methods

Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods

Posit Cheat Sheets - Can also be found at https://posit.co/resources/cheatsheets/.

overview of spatial datasets

tools to handle spatial transcriptome data

Comparison of methods for trajectory inference on single-cell data 🥇

A CLI interface for Marp and Marpit based converters

A tool for semi-automatic cell type classification

Biological evolution simulator

Code and data used by the JASPAR profile inference tool

Collection of bioinformatics training materials

R Markdown template for shower

My CV built using RMarkdown and the pagedown package.

An accurate GFF3/GTF lift over pipeline

iCal农历, 节气, 传统节日

Modern JavaScript Tutorial