Common Functions

This module provides core utilities and constants used throughout the FMDData.jl package for processing Foot-and-Mouth Disease seroprevalence data.

Main Module

The main FMDData module that orchestrates all data processing functionality:

FMDData Module

FMDData

A Julia package for cleaning and processing Foot-and-Mouth Disease (FMD) seroprevalence data from Indian Council of Agricultural Research (ICAR) annual reports.

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Constants

Package-wide constants that define standard values and configurations:

FMDData.default_allowed_serotypes Constant

default_allowed_serotypes

A vector of default allowed serotype names for FMD data processing. Contains the three main FMD serotypes: "o", "a", and "asia1".

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Utility Functions

Core utility functions that support data processing operations across the package.

Directory Management

Functions for managing file paths and directory structures used in the data processing pipeline:

FMDData.input_dir Function

input_dir(args...)

Returns the absolute path to the inputs directory of the project.

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FMDData.icar_inputs_dir Function

icar_inputs_dir(args...)

Returns the absolute path to the extracted-seroprevalence-tables directory, which contains the raw ICAR report data.

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FMDData.icar_outputs_dir Function

icar_outputs_dir(args...)

Returns the absolute path to the icar-seroprevalence directory, which contains the cleaned and processed data.

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FMDData.icar_cleaned_dir Function

icar_cleaned_dir(args...)

Returns the absolute path to the cleaned directory, which contains the cleaned ICAR report data.

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FMDData.icar_processed_dir Function

icar_processed_dir(args...)

Returns the absolute path to the processed directory, which contains the processed ICAR report data.

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Data Processing Utilities

Helper functions for common data manipulation tasks and filtering operations:

FMDData.skip_missing_and_nan Function

skip_missing_and_nan

Convenience function to skip missing and/or NaN values in a iterator.

Returns another iterator.

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FMDData.skip_nothing Function

skip_nothing

Convenience function to skip nothing values in an iterator

Returns another iterator.

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FMDData.update_regex Function

update_regex(
    original_reg::Regex,
    find_reg::Regex,
    substitution_str::SubstitutionString
)

Update a Regex string using regex and a substitution string.

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