Description:
hipsnp 0.0.2
hipsnp
<<< This is a development version, there is no any warranty that it works >>>
functions to handle SNP data, especially from the UKB.
>>> import hipsnp
>>> genotypes = hipsnp.vcf2genotype('snp_epilepsy.vcf')
>>> genotypes
4303212 3351913 2982758 ... 1709854 5348682 5862730
rs2535288,6:31064007_C_A CA CA CA ... CA CC CA
rs2858870,6:32572251_T_C TT TT TT ... TT TT TT
[2 rows x 487409 columns]
resources
SNP databases
https://www.ncbi.nlm.nih.gov/snp/
http://www.ensembl.org/Homo_sapiens
https://varsome.com
Tools
https://www.well.ox.ac.uk/~gav/qctool/
Info
https://eu.idtdna.com/pages/education/decoded/article/genotyping-terms-to-know
https://faculty.washington.edu/browning/intro-to-vcf.html
https://www.reneshbedre.com/blog/vcf-fields.html
https://www.garvan.org.au/research/kinghorn-centre-for-clinical-genomics/learn-about-genomics/for-gp/genetics-refresher-1/types-of-variants
License
For personal and professional use. You cannot resell or redistribute these repositories in their original state.
Customer Reviews
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