comparison COBRAxy/marea.py @ 279:7f37f9626071 draft

Uploaded

278:5e8f1ab4242f

            if sizeMismatch > 0: row.extend([FIELD_NOT_AVAILABLE] * sizeMismatch)
            writer.writerow({ field : data for field, data in zip(fieldNames, row) })

OldEnrichedScores = Dict[str, List[Union[float, FoldChange]]] #TODO: try to use Tuple whenever possible
def writeTabularResult(enrichedScores : OldEnrichedScores, ras_enrichment: bool, outPath :utils.FilePath) -> None:
    fieldNames = ["ids", "P_Value", "fold change"]
    if not ras_enrichment: fieldNames.extend(["average_1", "average_2"])

    writeToCsv([ [reactId] + values for reactId, values in enrichedScores.items() ], fieldNames, outPath)

def temp_thingsInCommon(tmp :Dict[str, List[Union[float, FoldChange]]], core_map :ET.ElementTree, max_z_score :float, dataset1Name :str, dataset2Name = "rest", ras_enrichment = True) -> None:
    # this function compiles the things always in common between comparison modes after enrichment.

279:7f37f9626071

            if sizeMismatch > 0: row.extend([FIELD_NOT_AVAILABLE] * sizeMismatch)
            writer.writerow({ field : data for field, data in zip(fieldNames, row) })

OldEnrichedScores = Dict[str, List[Union[float, FoldChange]]] #TODO: try to use Tuple whenever possible
def writeTabularResult(enrichedScores : OldEnrichedScores, ras_enrichment: bool, outPath :utils.FilePath) -> None:
    fieldNames = ["ids", "P_Value", "fold change", "average_1", "average_2"]

    writeToCsv([ [reactId] + values for reactId, values in enrichedScores.items() ], fieldNames, outPath)

def temp_thingsInCommon(tmp :Dict[str, List[Union[float, FoldChange]]], core_map :ET.ElementTree, max_z_score :float, dataset1Name :str, dataset2Name = "rest", ras_enrichment = True) -> None:
    # this function compiles the things always in common between comparison modes after enrichment.