Ming Tang

getting-started-with-genomics-tools-and-resources. Unix, R and python tools for genomics and data science

RNA-seq-analysis. RNAseq analysis notes from Ming Tang

ChIP-seq-analysis. ChIP-seq analysis notes from Ming Tang

scRNAseq-analysis-notes. scRNAseq analysis notes from Ming Tang

bioinformatics-one-liners. Bioinformatics one liners from Ming Tang

awesome_spatial_omics. tools and notes for spatial omics

TCR-BCR-seq-analysis. T/B cell receptor sequencing analysis notes

The-world-of-faculty. resources for faculty

DNA-seq-analysis. DNA sequencing analysis notes from Ming Tang

pyflow-ChIPseq. a snakemake pipeline to process ChIP-seq files from GEO or in-house

scATACseq-analysis-notes. my notes for scATACseq analysis

scclusteval. Single Cell Cluster Evaluation

DNA-methylation-analysis. DNA methylation analysis notes from Ming Tang

machine-learning-resource.

pyflow-ATACseq. ATAC-seq snakemake pipeline

papers_with_data_to_mine. published papers with a lot of data

biotech_resource. some resources for startup companies

compbio_tutorials. My youtube programming scripts

oneliner_100day_challenge. Bioinformatics one-liner for 100 days

scATACutils. R/Bioconductor package for working with 10x scATACseq data

scRNA-seq-workshop-Fall-2019. Harvard FAS informatics scRNAseq workshop website

reproduce_genomics_paper_figures. step by step tutorial in the website

Machine_learning_drug_discovery.

compbio_resources_chatomics.

pyflow-RNAseq. RNAseq pipeline based on snakemake

crazyhottommy.

ML-YouTube-Courses. 📺 Discover the latest machine learning / AI courses on YouTube.

awesome-long-reads. tools and notes for long reads analysis

pyflow-scATACseq. snakemake workflow for post-processing scATACseq data

single-cell-DNAseq-notes.

Coursera_Bioinformatics_for_Beginners. python scripts for the Coursera Bioinformatics for Beginners

pyflow-cellranger. A Snakemake pipeline for cellranger to process 10x single-cell RNAseq data

scripts-general-use. HTML

scCustomize. Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.

immunotherapy_scRNAseq_papers.

rnaseq_tutorial. Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

awesome-proteomics. proteomics analysis notes

coding_exercise_TCGA_infiltration. coding exercise using TCGA immune infiltration data

CV. my CV using pagedown

pyflow_seurat_parameter. cluster stability measurement by subsampling and reclustering with Seurat V3 and V4

generative-ai-for-beginners. 18 Lessons, Get Started Building with Generative AI 🔗 https://microsoft.github.io/generative-ai-for-beginners/

oneliners. Useful bash one-liners for bioinformatics.

mixed_histology_lung_cancer.

awesome-single-cell-proteomics.

the-art-of-command-line. Master the command line, in one page

single-cell-RNAseq-PCA-CCA-cell-annotation. https://crazyhottommy.github.io/single-cell-RNAseq-PCA-CCA-cell-annotation/

machine_learning_datasets.

bulk-RNAseq-workshop. introduction to R and RNAseq

papers_to_replicate_figures. potential papers to reproduce figures

In-depth-NGS-Data-Analysis-Course. Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.

MAESTRO. Single-cell Transcriptome and Regulome Analysis Pipeline

wholebrain_docker. docker file for wholebrain http://www.wholebrainsoftware.org/cms/installing-wholebrain-on-ubuntudebian/

MIT6.00.1x-Introduction-to-Computer-Science-and-Programming-Using-Python. my notes for the homework

slurmpy. submit jobs to slurm in Odyssey HPC

computation_wiki. Tommy's computation wiki

hodgkin_lymphoma_publication_scRNAseq_analysis. Jupyter Notebook