Arguments of Import Function - `moimport`"
In MLMOI: Estimating Frequencies, Prevalence and Multiplicity of Infection

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`molecular` & `coding`

Different classes of coding under various types of molecular type. The options in orange are default values:

|molecular | coding | |:--------------|:----------------| |'STR' | 'integer' | | | 'nearest' | | | 'ceil' | | | 'floor' | |'SNP' | '4let' | | | 'iupac' | |'amino' | '3let' |
| | '1let' | | | 'full' | |'codon' | 'triplet' | | | 'compact' |

Different values of arguments

The options and their possible values of moimport function. The values in orange are default values. Admissible values for option coding for different values of option molecular are marked with different symbols.

|argument | values | description | |:------------------|:-------------------------|:----------------------------------------------------------------| |multsheets | 'FALSE' | single worksheet dataset
| | 'TRUE' | multiple worksheet dataset |nummtd | 0 | no metadata column | | n | number of metadata columns |keepmtd | 'FALSE' | ignores metadata during exporting | | TRUE | keeps and checks metadata |transposed | 'FALSE' | samples in rows, markers in columns | | TRUE | markers in rows, samples in columns |molecular | 'STR'$^$ | short tandem repeats | | 'SNP'$^+$ | single nucleotide polymorphisms | | 'amino'$^\S$ | amino acids | | 'codon'$^{++}$ | three DNA bases |coding | 'integer'$^$ | STR data where entries are integer values | | 'nearest'$^$ | STR data where real values are converted to the nearest integer | | 'ceil'$^$ | STR data where ceiling function is applied to real values | | 'floor'$^*$ | STR data in floor function is applied to real values | | '4let'$^+$ | SNP data in four-letter code i.e. 'A', 'C', 'G', 'T' | | 'iupac'$^+$ | SNP data in IUPAC notation | | '3let'$^\S$ | amino acids with 3-letter designations | | '1let'$^\S$ | amino acids with 1-letter designations | | 'full'$^\S$ | amino acids with their full names | | 'triplet'$^{++}$ | codons where the four-letter codes are used for encoding | | 'compact'$^{++}$ | codons where IUPAC coding is used for encoding