Mercurial > repos > madisonflannery > abricate
changeset 15:fbeede2de861 draft
planemo upload commit b96f36f68454b65fc6b53900024f0dd4e4630920-dirty
| author | madisonflannery |
|---|---|
| date | Mon, 03 Oct 2016 01:58:35 -0400 |
| parents | 685a01d4abae |
| children | b2835f8f3050 |
| files | abricate.xml |
| diffstat | 1 files changed, 27 insertions(+), 11 deletions(-) [+] |
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--- a/abricate.xml Mon Oct 03 01:37:37 2016 -0400 +++ b/abricate.xml Mon Oct 03 01:58:35 2016 -0400 @@ -94,17 +94,33 @@ ABRicate will produce a tab-seperated output file with the following outputs: - Column Example Description - FILE Ecoli.fna The filename this hit came from - SEQUENCE contig000324 The sequence in the filename - START 23423 Start coordinate in the sequence - END 24117 End coordinate - GENE tet(M) ABR gene - COVERAGE 1-1920/1920 What proportion of the gene is in our sequence - COVERAGE_MAP =============== A visual represenation - GAPS 0 Was there any gaps in the alignment - possible pseudogene? - %COVERAGE 100.00% Proportion of gene covered - %IDENTITY 99.95% Proportion of exact nucleotide matches ++--------------+-----------------+----------------------------------+ +| Column | Example | Description | ++==============+=================+==================================+ +| FILE | Ecoli.fna | The filename this hit came from | ++--------------+-----------------+----------------------------------+ +| SEQUENCE | contig000324 | The sequence in the filename | ++--------------+-----------------+----------------------------------+ +| START | 23423 | Start coordinate in the sequence | ++--------------+-----------------+----------------------------------+ +| END | 24117 | End coordinate | ++--------------+-----------------+----------------------------------+ +| GENE | tet(M) | ABR gene | ++--------------+-----------------+----------------------------------+ +| COVERAGE | 1-1920/1920 | What proportion of the gene | +| | | is in our sequence | ++--------------+-----------------+----------------------------------+ +| COVERAGE_MAP | =============== | A visual represenation | +| | | | ++--------------+-----------------+----------------------------------+ +| GAPS | 0 | Was there any gaps in the | +| | | alignment - possible pseudogene? | ++--------------+-----------------+----------------------------------+ +| %COVERAGE | 100.00% | Proportion of gene covered | ++--------------+-----------------+----------------------------------+ +| %IDENTITY | 99.95% | Proportion of exact | +| | | nucleotide matches | ++--------------+-----------------+----------------------------------+ ]]></help>