High quality G-to-A SNPs from the genomes of 96 wild caught three-spine sticklebacks
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| Autori principali: | , , , , , |
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| Natura: | Dataset Open Access |
| Lingua: | en |
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PANGAEA
2019
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| _version_ | 1867172150098526208 |
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| author | Meyer, Britta S Heckwolf, Melanie Häsler, Robert Höppner, Marc P Eizaguirre, Christophe Reusch, Thorsten B H |
| author_facet | Meyer, Britta S Heckwolf, Melanie Häsler, Robert Höppner, Marc P Eizaguirre, Christophe Reusch, Thorsten B H |
| collection | Datos científicos de ciencias marinas y ambientales |
| contents | To improve the methylation estimates in our study, we corrected for SNPs, which could have led to a wrong methylation call. The excluded positions were derived with custom written perl scripts from C-to-T and G-to-A-SNPs with genotype quality of 20 and a minimum allele frequency of 0.005 from the 96 wild caught three-spined sticklebacks with a combination of custom written Perl and R-scripts using packages from methylkit and GenomicRanges. This BED-file contains the G-to-A-SNPs, in which the first field is the name of the chromosome; the second describes the start position and the third the end position of the feature in standard chromosomal coordinates. |
| format | Dataset Open Access |
| id | pangaea_https___doi_org_10_1594_PANGAEA_909527 |
| institution | PANGAEA |
| language | en |
| publishDate | 2019 |
| publisher | PANGAEA |
| record_format | pangaea |
| spellingShingle | High quality G-to-A SNPs from the genomes of 96 wild caught three-spine sticklebacks Meyer, Britta S Heckwolf, Melanie Häsler, Robert Höppner, Marc P Eizaguirre, Christophe Reusch, Thorsten B H Baltic Sea; BED; Local adaptation; methylation call; population genomics; SNP; three-spined stickleback; Whole genome sequencing To improve the methylation estimates in our study, we corrected for SNPs, which could have led to a wrong methylation call. The excluded positions were derived with custom written perl scripts from C-to-T and G-to-A-SNPs with genotype quality of 20 and a minimum allele frequency of 0.005 from the 96 wild caught three-spined sticklebacks with a combination of custom written Perl and R-scripts using packages from methylkit and GenomicRanges. This BED-file contains the G-to-A-SNPs, in which the first field is the name of the chromosome; the second describes the start position and the third the end position of the feature in standard chromosomal coordinates. |
| title | High quality G-to-A SNPs from the genomes of 96 wild caught three-spine sticklebacks |
| topic | Baltic Sea; BED; Local adaptation; methylation call; population genomics; SNP; three-spined stickleback; Whole genome sequencing |
| url | https://doi.org/10.1594/PANGAEA.909527 |