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comparison vsnp_statistics.xml @ 20:d4ef7003c539 draft

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"planemo upload for repository https://github.com/gregvonkuster/galaxy_tools/tree/master/tools/sequence_analysis/vsnp/vsnp_statistics commit a08a9977ae1ac36c46b9fb7898bd4b5c4c302c11"
author greg
date Thu, 12 Aug 2021 17:08:20 +0000
parents 076069733de7
children b908bb18008a
comparison
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19:ae006e01b0fa 20:d4ef7003c539
103 </tests> 103 </tests>
104 <help> 104 <help>
105 **What it does** 105 **What it does**
106 106
107 Accepts associated fastq files, SAMtools idxstats files and **vSNP: add zero coverage** metrics files and extracts information from them 107 Accepts associated fastq files, SAMtools idxstats files and **vSNP: add zero coverage** metrics files and extracts information from them
108 to produce an Excel spreadsheet containing statistics for each sample. The samples can be a single read, a single set of paired reads in 108 to produce a tabular file containing statistics for each sample. The samples can be a single read, a single set of paired reads in
109 separate datasets or collection of paired reads. The output statistics include reference, file size, mean read length, mean read quality, 109 separate datasets or a collection of paired reads. The output statistics include reference, file size, mean read length, mean read quality,
110 reads passing Q30, total reads, all mapped reads, unmapped reads, unmapped reads percentage of total, reference with coverage, average depth 110 reads passing Q30, total reads, all mapped reads, unmapped reads, unmapped reads percentage of total, reference with coverage, average depth
111 of coverage and good SNP count. 111 of coverage and good SNP count.
112 </help> 112 </help>
113 <expand macro="citations"/> 113 <expand macro="citations"/>
114 </tool> 114 </tool>