View source: R/compute_amanida.R

compute_amanida | R Documentation |

`compute_amanida`

Combines for the same entry or metabolite the statistical values of p-value and fold-change. Also is computed a vote-counting for each compound. Compound combination is made with PubChem CID when is available.

```
compute_amanida(datafile, comp.inf = F)
```

`datafile` |
data imported using |

`comp.inf` |
include compounds IDs from PubChem, InChIKey, SMILES, KEGG, ChEBI, HMDB, Drugbank, Molecular Mass and Molecular Formula |

Entries corresponding to metabolites are combined as follows:

P-values are combined using Fisher method weighted by N and gamma distribution

Fold-change are combined by weighted mean. Transformation works with fold-change transformed to log scale with base 2.

Vote-counting is computed based on votes. Punctuation of entries is based on trend, up-regulation gives 1, down-regulation give -1 and equal behavior gives 0. Total sum is divided then by the total number of entries on each compound.

METAtable S4 object with p-value combined, fold-change combined and vote-counting for each compound

```
## Not run:
data("sample_data")
compute_amanida(sample_data)
## End(Not run)
```

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