awesome-genetics

A curated list of awesome personal genomics and genetic genealogy software, services, libraries, and educational resources.

Essentials

Education and courses

• SNPedia — A wiki investigating human genetics.
• Bioinformatics for Beginners — Coursera's introductory course to the field of bioinformatics
• The National Center for Biotechnology Information — advances science and health by providing access to biomedical and genomic information
• Harvard Medical School Online
• Introduction to Biology - The Secret of Life by Edx
• Path to a free self-taught education in Bioinformatics

Offline Tools

• chrchang/plink-ng — PLINK association analysis toolset home page
• vcftools/vcftools — A set of tools written in Perl and C++ for working with VCF files
• samtools/bcftools — Utilities for variant calling and manipulating VCFs and BCFs by HTSlib
• samtools/samtools — Utilities for the Sequence Alignment/Map (SAM) format by HTSlib
• arrogantrobot/23andme2vcf — Convert a 23andme raw file to VCF (Perl)
• 23andMe/seqseek — Easy access to human reference genome sequences (Python)

Online tools

• varsome.com — The Human Genomic Variant Search Engine

Health and traits

Knowledge

• Genetics Home Reference — consumer-friendly information about the effects of genetic variation on human health

Online tools

• Codegen — A free comprehensive health report using consumer DNA raw files.
• Promethease — Generates health and trait reports based on SNPedia (paid)
• Genomelink — Health and traits reports based on DNA raw files.

Genetic genealogy

Knowledge

• ISOGG Wiki — International Society of Genetic Genealogy Wiki
• Beginners guide to genetic genealogy

Offline tools

• apriha/lineage — Tools for genetic genealogy and the analysis of consumer DNA test results (Python)
• 23andMe/yhaplo — Identifying Y-chromosome haplogroups in arbitrarily large samples of sequenced or genotyped men (Python)

Online tools

• GEDmatch — GEDmatch is a free online toolset to compare autosomal DNA data files
• DNA.Land — The site offers a biogeographical analysis, imputation and a relative-matching feature
• David Pike's Tools — Utilities for analysing raw DNA data (JS)
• Shared cM Project — Visualize relationship probabilities based on centimorgans

Additional Geneology Researh Resources

Books

• Passenger and immigration lists index - A guide to published arrival records of 300,000 passengers who came to the United States and Canada in the seventeenth, eighteenth, and nineteenth centuries
• Passenger lists of ships coming to North America, 1607-1825 - list of ships
• Cavaliers and Pioneers A CALENDAR OF VIRGINIA LAND GRANTS 1800 Vol. I. No. 1. - Virginia Land Grants
• Cavaliers and Pioneers A CALENDAR OF VIRGINIA LAND GRANTS 1800 Vol. I. No. 4 - PDF - Virgina Land Grants

Country and state databases

United States

State Archieve Searches

• Illinois
• Maryland
• Massachusetts
• North Carolina
• South Carolina
• Tennessee
• Virginia