metadata_extraction

This function retrieves metadata (ID, region, date) from the input FASTA file, with the source of, either 
NCBI (with default FASTA header) or GISAID (with default FASTA header). The function will return a dataframe
that has three columns consisting ID, collected region and collected date. Records that do not have region or date
information will be excluded from the output dataframe.

To ease the visualization of outputs from Diversity Motif Analyser ('DiMA';
<https://github.com/BVU-BILSAB/DiMA>). 'vDiveR' allows visualization of the diversity
motifs (index and its variants – major, minor and unique) for elucidation of
the underlying inherent dynamics. Please refer <https://vdiver-manual.readthedocs.io/en/latest/>
for more information.

Pendy Tok

vDiveR

Visualization of Viral Protein Sequence Diversity Dynamics

Li Chuin Chong

Evgenia Chikina

Yin Cheng Chen

Mohammad Asif Khan

metadata_extraction function

<dl><dt>file_path</dt>
<dd>path of fasta file</dd>
<dt>source</dt>
<dd>the source of fasta file, either "NCBI" or "GISAID"</dd></dl>

Arguments

Metadata Extraction from NCBI/GISAID (EpiFlu/EpiCoV/EpiPox/EpiArbo) FASTA file — metadata_extraction

<dl>

<dt>file_path</dt>
<dd>path of fasta file</dd>


<dt>source</dt>
<dd>the source of fasta file, either "NCBI" or "GISAID"</dd>

</dl>

metadata_extraction: Metadata Extraction from NCBI/GISAID (EpiFlu/EpiCoV/EpiPox/EpiArbo) FASTA file

Description

Usage

Value

Arguments

Examples