ZEAMAP Genotype Data Search Module

Browse the genotype of certain germplasms within the region of interest.

Platform

• Drupal 7.x
• Tripal 7.x-3.x

Prerequisite

• htslib
• bcftools

Installation and Usage

• Make sure htslib and bcftools were correctly installed, and make sure the path of bcftools executable file was added to $PATH variable.
• Download this repository
• Switch to drupal environment, and lunch this module with drush en -y zmap_genotype
• this module needs a genotype_dataset.txt file to record the dataset and the file paths of related variant (in vcf.gz format) and sample list in format below:

DatasetName	DataSetFile	SampleListFile
MaizeAMP_snp_InDel	AMP_snp_indel_anno.vcf.gz	MaizeAMP_snp_InDel_sample.txt
...	...	...