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Tools, data, and cores we use
A curated set of links for new lab members and anyone getting started in single-cell genomics.
Computational Biology
Python
Jupyter Notebooks
Introduction to Bash Scripting
RStudio
Shiny
Scanpy
Seurat
Key Numbers for Cell Biologists
Gawad Lab on GitHub
Databases
St. Jude PCGP
TCGA
CellSeek
Tabula Sapiens
Human Cell Atlas
Connectivity Map
NIST Mass Spec Data Center
OpenCell
JGI Integrated Microbial Genomes
JGI Genomes Online Database
Genomics 101
NIH: Introduction to Genomics
Coursera: Introduction to Genomics
NIH: Precision Medicine
Stanford Center for Genomics and Personalized Medicine
UCSC Genome Browser
NCBI BLAST
Instrument Reservations & Cores
SU BMI Shared Instrument Reservation Calendar
SU Shared Scientific Facilities (iLab)
FACS Core
Canary Center Shared Resource Facilities
CZ Biohub Genomics
Stanford Functional Genomics Facility