Dataset Open Access

Graphing and tabulating next-generation sequencing and genotyping data

Gilks, William

Making figures and tables for publication. Each zip archive contains input data, shell script to initiate and log R script, one R script for generating several graphs and tables, and the output graphs and tables themselves.

Data was generated by whole-genome resequencing of 22 individual D.melanogaster from Sussex-LHM population and 2 from the Sussex RG line, followed by read-mapping, then genotyping with Haplotype Caller and Genomestrip.

Locations for raw data, code, logs, extended QC data:

Sequence reads NCBI SRA268956

NCBI dbSNP https://www.ncbi.nlm.nih.gov/projects/SNP/snp_viewBatch.cgi?sbid=1062461

NCBI dbVar accession number pre-release nstd134

 

The pre-print manuscript for this data is available on biorxiv: "Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample" http://biorxiv.org/content/early/2016/10/17/081554 doi: http://dx.doi.org/10.1101/081554

 

The principle researcher for this project was additionally funded by a Royal Society University Research Fellowship (UK).
Files (66.7 MB)
Name Size
genomestrip_cnv_analysis.zip
md5:fa707b78c5d77a981b2a5d7cfa362482
535.1 kB Download
haplotypeCaller_snp_analysis.zip
md5:1c9c5b87ba8226cbaac2ffdfecc5cb2f
63.8 MB Download
sequencing_quality_analysis.zip
md5:1a4194ec94de39d5463face9d0f61361
2.4 MB Download
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