FastQC-viz: Basic statistics

Create base statistics HTML elements to add to the final report. The final output is a HTML table with a single column, containing the statistics name in a <span> element and the value.

Usage

plot_basic_statistics(fastqc_data)

Arguments

fastqc_data

output from parse_fastqc()

Value

html table

Examples

fastqc_data <- parse_fastqc(system.file("extdata", "SRR622457_2_fastqc.txt", package = "fastqcviz"))
plot_basic_statistics(fastqc_data)
#> <table>
#> <tbody>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>Filename</span>SRR622457_2.fastq.gz </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>File type</span>Conventional base calls </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>Encoding</span>Sanger / Illumina 1.9 </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>Total Sequences</span>2,500,000 </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>Total Bases</span>252.5 Mbp </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>Sequences flagged as poor quality</span>0 </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>Sequence length</span>101 </td>
#>   </tr>
#>   <tr>
#>    <td style="text-align:left;"> <span class = 'row-title above'>%GC</span>49 </td>
#>   </tr>
#> </tbody>
#> </table>