Mirrors_Framework/deepmind-research
1
0
Fork 0
mirror of https://github.com/google-deepmind/deepmind-research.git synced 2026-05-21 23:07:29 +08:00
Code Issues Actions Packages Projects Releases Wiki Activity

Clarify that profile_with_prior is computed from HHBlits MSA.

Browse Source 
PiperOrigin-RevId: 312276743
This commit is contained in:
Augustin Zidek
2020-05-19 15:35:19 +01:00
committed by Diego de Las Casas
parent 5f50fa3982
commit 77886cb179
1 changed files with 1 additions and 1 deletions
Download Patch File Download Diff File Expand all files Collapse all files
alphafold_casp13/README.md
+1 -1
View File
@@ -236,7 +236,7 @@ thorough explanation are explained in the section below the table. Note that
| `phi_angles` | ❌ | float32 | `(NR, 1)` | The phi angles. |
| `phi_mask` | ❌ | int64 | `(NR, 1)` | Mask for `phi_angles`. |
| `profile` | ❌ | float32 | `(NR, 21)` | A profile (probability distribution over amino acid types) computed using PSI-BLAST. Equivalent to the output of ChkParse. |
| `profile_with_prior` | ✔️ | float32 | `(NR, 22)` | Profile which takes into account priors and Blosum matrix. See equation 5 in https://doi.org/10.1093/nar/25.17.3389. |
| `profile_with_prior` | ✔️ | float32 | `(NR, 22)` | A profile computed using HHBlits which takes into account priors and Blosum matrix. See equation 5 in https://doi.org/10.1093/nar/25.17.3389. |
| `profile_with_prior_without_gaps` | ✔️ | float32 | `(NR, 21)` | Same as `profile_with_prior` but without gaps included. |
| `pseudo_bias` | ✔️ | float32 | `(NR, 22)` | The bias computed in the MSA pseudolikelihood computation. |
| `pseudo_frob` | ✔️ | float32 | `(NR, NR, 1)` | Frobenius norm of `pseudolikelihood` (gaps not included). Similar to the output of CCMPred. |