305-high-quality-SV-dataset-of-3KRGP
收藏科学数据银行2025-09-10 更新2026-04-23 收录
下载链接：
https://www.scidb.cn/detail?dataSetId=e8798cab0c2a430d8b658ae730c147ac
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资源简介：
The R pipelines (BWGS) and bash workflows for rice genomic analysis. Three marker strategies are supported:variant_calling: Stand‑alone bash scripts for variant discovery (SNP/INDEL with GATK; SV with Delly)SNP: SNP‑only GS workflowsSV: SV‑only GS workflows (raw / genic / intergenic)Both: Combined SNP + SV GS workflowsEach sub‑folder contains:One or more core R scripts (BWGS_with_*.R) that run 5‑fold × 10‑repeat cross‑validation on up to ten GS models (GBLUP, RF, EGBLUP, RR, BRR, LASSO, EN, BL, BB, RKHS).Shell wrappers (run_*.sh) that set the working directory and call the corresponding R script for a specific GWAS filtering threshold (p < 0.05 / 0.01 / 0.001 or “whole” set).The scripts and pipelines for the study are also accessible in https://github.com/lianglunping/305-high-quality-SV-dataset-of-3KRGP/tree/main.
提供机构：
Lunping Liang; Shuran Zhou; Yanru Cui; Anhui Agricultural University; Zhikang Li; Chaopu Zhang; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences; Linjun Yu; Wensheng Wang; Tingting Sheng; Shijiao Li; Shuyue Zheng
创建时间：
2025-09-10
