A python package to calculate varBscore using vcf input
Project description
varBscore: calculate varBscore using vcf input
Usage
basic usage
$ snpScore-mp2 \
-p '{"mutant":["mutan"],"wild":["wild"],"mutant_parent":[],"wild_parent":[],"background":[],"qtlseqr_window":1000000,"qtlseqr":"qtlseqr","ed":"ed","min_depth":5,"snp_number_window":20,"snp_number_step":5,"ref_freq":0.3,"p_ref_freq":0.3,"background_ref_freq":0.3,"qtlseqr_min_depth":5,"qtlseqr_ref_freq":0.3,"pop_stru":"RIL","snp_density_window":100000,"snp_density_step":100000}' \
--vcf_dir vcf.dir1 \
--vcf_dir vcf.dir2 \
--chr_size chr.size \
--thread 4 \
--plant \
-o out.dir \
--snpeff_db snpeff.db.name \
--snpeff_cfg snpeff.config.path
Project details
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Source Distribution
varBscore-1.0.1.tar.gz
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