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Filtered neutral SNP data for the Kuranda Treefrog

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DataCite Commons2022-08-16 更新2024-07-29 收录
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https://figshare.com/articles/dataset/Filtered_neutral_SNP_data_for_the_Kuranda_Treefrog/20493423/1
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This dataset contains the filtered neutral SNP data (genepop format) produced with DArTseq at Diversity Arrays Technology, Canberra. <br> Adult individuals were sampled throughout the species range between 2000 and 2016, with two main sampling events (2001-2004; 2007-2009). <br> The library preparation consisted of a dougle digest restriction with PstI and SphI. Fragments were amplified with 30 rounds of PCR. No size selection was conducted. Equimolar amounts of the individual libraries were pooled and sequenced on an Illumina HiSeq 2500 (77-bp single end). The resulting raw data was genotyped with DArT's KDCompute, and then filtered in R and excel for Call Rate (&lt; 0.9), MAF (&lt; 0.02), Reproducibility (&lt;0.9). Single calls with a read depth below 10 were silenced. Monomorphic loci were removed. From each pair of siblings only the one with the higher call rate was retained. <br> Additionally, a metadata file containing sex, year and location of sampling is provided. A readme file is included.
提供机构:
figshare
创建时间:
2022-08-16
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