Output format for paired sample calling
The output format is a single row for each putative paired denovo mutation(DNM), with the following fields
1. Event type (POINT MUTATION or INDEL).
2. TUMOR_ID - sample ID of the 'TUMOR' sample.
3. NORMAL_ID - sample ID of the 'NORMAL' sample.
4. chr - chromosome.
5. pos - physical Position.
6. ref - base present in reference sequence at this position (from BCF).
7. alt - comma separated list of alternate non-reference alleles called on at-least one sample (from BCF).
8. maxlike_null - likelihood of the most likely compatible genotype configuration.
9. pp_null - posterior probability of the most likely compatible genotype configuration.
10. tgt_null(normal/tumor) - genotypes of the most likely compatible configuration.
11. maxlike_dnm - likelihood of the most likely denovo genotype configuration.
12. pp_dnm - posterior probability of the most likely denovo genotype configuration.
13. tgt_dnm(normal/tumor) - genotypes of the most likely denovo configuration.
14-15. Read depth of tumor, normal samples.
16-17. Root mean square of the mapping qualities of all reads mapping to the site for tumor, normal samples.
18-19. null_snpcode, dnm_snpcode - snpcode is a field used to classify the genotype configurations for the null and alternate case. 0 stands for hom/hom, 1 stands for het/hom, 2 stands for hom/het and 3 stands for het/het.