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317 bytes removed
, 10:36, 31 January 2015
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| {| class="wikitable" | | {| class="wikitable" |
| |- | | |- |
− | ! scope="col"| Case | + | ! scope="col"| Ploidy |
| ! scope="col"| Alleles | | ! scope="col"| Alleles |
| ! scope="col"| Genotypes | | ! scope="col"| Genotypes |
| ! scope="col"| Index | | ! scope="col"| Index |
− | ! scope="col"| comments
| |
| |- | | |- |
− | | ploidy \le alleles | + | | 1 |
− | | ploidy alleles
| + | | A |
− | <math>
| + | | A |
− | \begin{align}
| + | | Simple haploid case |
− | P(G_{i,j}|R_{k})^{(l)}=\frac{P(R_{k}|G_{i,j})P(G_{i,j})^{(l-1)}}{\sum_{(i,j)}{P(R_{k}|G_{i,j})P(G_{i,j})^{(l-1)}}}
| |
− | \end{align}
| |
− | </math>
| |
− | | 18794 | |
− | | 18849 | |
− | | bcftools's normalization is buggy, variants were truncated despite having differing prefix. | |
| |- | | |- |
− | | ploidy gt alleles | + | | 2 |
− | | - | + | | A |
− | | - | + | | |
− | | - | + | | Diploid Case |
− | | -
| |
| |- | | |- |
| | #normalized after gatk | | | #normalized after gatk |
− | | -
| |
| | 0 | | | 0 |
| | 57 | | | 57 |
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| | #normalized after vt | | | #normalized after vt |
| | - | | | - |
− | | 0
| |
| | 0 | | | 0 |
| | no variants processed by vt were further normalized. | | | no variants processed by vt were further normalized. |
| |} | | |} |