| snpdat {updog} | R Documentation |
GBS data from Shirasawa et al (2017)
Description
Contains counts of reference alleles and total read counts from the GBS data of Shirasawa et al (2017) for the three SNPs used as examples in Gerard et. al. (2018).
Usage
snpdat
Format
A tibble with 419 rows and 4 columns:
- id
The identification label of the individuals.
- snp
The SNP label.
- counts
The number of read-counts that support the reference allele.
- size
The total number of read-counts at a given SNP.
Value
A tibble. See the Format Section.
Source
References
Shirasawa, Kenta, Masaru Tanaka, Yasuhiro Takahata, Daifu Ma, Qinghe Cao, Qingchang Liu, Hong Zhai, Sang-Soo Kwak, Jae Cheol Jeong, Ung-Han Yoon, Hyeong-Un Lee, Hideki Hirakawa, and Sahiko Isobe "A high-density SNP genetic map consisting of a complete set of homologous groups in autohexaploid sweetpotato (Ipomoea batatas)." Scientific Reports 7 (2017). doi:10.1038/srep44207
Gerard, D., Ferrão, L. F. V., Garcia, A. A. F., & Stephens, M. (2018). Genotyping Polyploids from Messy Sequencing Data. Genetics, 210(3), 789-807. doi:10.1534/genetics.118.301468.