comparison vsnp_statistics.xml @ 2:7fe0cbb8c894 draft

Uploaded

1:14e29f7d59ca

<tool id="vsnp_statistics" name="vSNP: statistics" version="1.0.0">
    <description></description>
    <requirements>
        <requirement type="package" version="0.5.1">humanize</requirement>
        <requirement type="package" version="1.16.5">numpy</requirement>
        <requirement type="package" version="0.25.3">pandas</requirement>
        <requirement type="package" version="1.2.0">xlrd</requirement>
        <requirement type="package" version="1.2.8">xlsxwriter</requirement>
    </requirements>

        </test>
    </tests>
    <help>
**What it does**

Accepts a single fastqsanger read, a set of paired reads, or a collections of reads along with associated SAMtools
idxstats and vSNP zero coverage metrics files and extracts information from the files to produce a tabular statistics
dataset that includes total reads, mean read length and quality, reads passing Q30, mapped and unmapped reads, depth
of coverage, good SNP count and more.

**Required options**

 * **Choose the type for files to be analyzed** - select "Single files" or "Collections of files", then select the appropriate history items (single or paired fastqsanger reads or collections of fastqsanger reads and associated idxstats and vSNP zero coverage metrics files) based on the selected option..
    </help>

2:7fe0cbb8c894

<tool id="vsnp_statistics" name="vSNP: statistics" version="1.0.0">
    <description></description>
    <requirements>
        <requirement type="package" version="1.16.5">numpy</requirement>
        <requirement type="package" version="0.25.3">pandas</requirement>
        <requirement type="package" version="1.2.0">xlrd</requirement>
        <requirement type="package" version="1.2.8">xlsxwriter</requirement>
    </requirements>

        </test>
    </tests>
    <help>
**What it does**

Accepts a single fastqsanger sample, a set of paired read samples, or a collections of samples along with associated
SAMtools idxstats and vSNP zero coverage metrics files and extracts information from them to produce an Excel
spreadsheet containing statistics for each sample.  Statistics include reference, file size, mean read length, mean
read quality, reads passing Q30, total reads, all mapped reads, unmapped reads, unmapped reads percentage of total,
reference with coverage, average depth of coverage and good SNP count.

**Required options**

 * **Choose the type for files to be analyzed** - select "Single files" or "Collections of files", then select the appropriate history items (single or paired fastqsanger reads or collections of fastqsanger reads and associated idxstats and vSNP zero coverage metrics files) based on the selected option..
    </help>