General Bioinformatics Resources

BTEP and related resources open to everyone at NIH (not just NCI CCR)

• NIH Bioinformatics Calendar, sponsored by the NCI CCR Bioinformatics Training and Education Program (BTEP), contains information on all bioinformatics (and some data science) trainings/ presentations/ classes offered on the NIH campus.

• BTEP Distinguished Speakers Seminar Series

• BTEP “Topics in Bioinformatics” Seminar Series includes variant analysis, RNA-Seq, single cell, microbiome analysis, ChIP-Seq and more. See the NIH Bioinformatics Calendar for upcoming events. Check out the BTEP Video archive to view recordings of past sessions.

• NIH Library Bioinformatics Support Program is open to anyone at NIH and includes 2 Workstations with Bioinformatics Data Analysis Software (Partek Flow and Partek Genomics Suite, Qiagen Ingenuity Pathway Analysis and CLC Genomics Workbench, and much more). See entire list of resources here.

• Coursera NIH Learning Program - licenses provided by the NLM Office of Data Science Initiatives are available to anyone at NIH; apply here.

• NIAID Collective Bioinformatics Resource (NCBR)

• Bioinformatics workflows on Biowulf

  • CCBR Pipeliner – a suite of NGS analysis workflows (RNASeq, WESSeq, ATACSeq, ChIPSeq, CRISPRSeq, CUT&RunSeq, EV-Seq,circRNASeq, scRNASeq, WGSSeq) on NIH HPC Biowulf from the CCR Collaborative Bioinformatics Resource.

  • OpenOmics/genome-seek: a comprehensive clinical WGS and WES pipeline.

• NIH Cloud Resources

  • STRIDES initiative as part of the NIH Strategic Plan for Data Science.

  • Cancer Research Data Commons is a cloud-based infrastructure for analysis of cancer research data that includes databases and large collection of analysis tools and workflows.

  • NIDAP (NIH Integrated Data Analysis Portal) bulk and single cell RNA-Seq workflows; login with your NIH credentials here.

  • NHGRI Analysis Visualization and Informatics Lab-space

Resources for the general public

BTEP Resources

• BTEP FAQs on Single Cell RNA-Seq and ChIP-Seq are open to the world.
• The BTEP resources pages.
• BTEP Class Documentation.
• BTEP Video Archive.

Publicly available resources

While by no means comprehensive, we are including several links to publicly available resources useful for learning bioinformatics or relevant skills:

• Data carpentries workshops for lessons on data analysis that are both general and specific
• Software carpentries for lessons introducing unix, version control, python, and R.
• Community resources and tutorials from Bioconductor are found in the Documentation box on the Bioconductor help page.
• Galaxy Training materials
• Tutorials on statistical tools from STHDA
• Biostars Bioinformatics Explained includes a question and answer forum and tutorials page
• Bioinformatics Workbook
• RNA-seq Bioinformatics - Griffith lab
• Genomic data and visualization - Griffith lab
• Precision medicine Bioinformatics - Griffith lab
• Orchestra for data science education
• Harvard Chan Bioinformatics Core Trainings
• Glittr (Git repositories with bioinformatics training material)
• EMBL-EBI Training
• Swiss Institute of Bioinformatics
• NCBI Outreach Events