def evaluate_low_memory_chrom(chrom_name,true_chrom,pred_chrom,known_fp=None):
trueChromVariants = ChromVariants(chrom_name,max_indel_len)
for r in true_chrom:
trueChromVariants.add_record(r)
predChromVariants = ChromVariants(chrom_name,max_indel_len)
for r in pred_chrom:
predChromVariants.add_record(r)
knownFpChromVariants = ChromVariants(chrom_name,max_indel_len)
cvs = chrom_evaluate_variants(trueChromVariants,predChromVariants,eps,eps_bp,ref,window,known_fp)
aggregate_stats(genome_stats,cvs) # side effects, sorry
if writer:
write_annotated_var(writer,cvs)
def evaluate_low_memory_chrom(chrom_name,
true_chrom,
pred_chrom,
known_fp=None):
trueChromVariants = ChromVariants(chrom_name, max_indel_len)
for r in true_chrom:
trueChromVariants.add_record(r)
predChromVariants = ChromVariants(chrom_name, max_indel_len)
for r in pred_chrom:
predChromVariants.add_record(r)
knownFpChromVariants = ChromVariants(chrom_name, max_indel_len)
cvs = chrom_evaluate_variants(trueChromVariants, predChromVariants,
eps, eps_bp, ref, window, known_fp)
aggregate_stats(genome_stats, cvs) # side effects, sorry
if writer:
write_annotated_var(writer, cvs)
def evaluate(true,pred,known_fp): return chrom_evaluate_variants(true,pred,eps,eps_bp,ref,window,known_fp)
def evaluate(true, pred, known_fp):
return chrom_evaluate_variants(true, pred, eps, eps_bp, ref, window,
known_fp)