Microbial 'omics


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coverages-txt [artifact]

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TXT

A TXT-type anvi’o artifact. This artifact is typically generated, used, and/or exported by anvi’o (and not provided by the user)..

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Provided by

anvi-export-gene-coverage-and-detection anvi-export-splits-and-coverages anvi-get-split-coverages anvi-script-get-coverage-from-bam

Required or used by

Description

This is a text file containing the average coverage for each contig in each sample that was in the profile-db and contigs-db that you used when you ran anvi-export-splits-and-coverages or anvi-export-gene-coverage-and-detection.

This is a tab-delimited file where each row describes a specific split/gene and each column describes one of your samples. Each cell contains the average coverage of that contig in that sample.

This artifact is really only used when taking information out of anvi’o, so enjoy your coverage information :)

Example for splits

(the type of output you would get from anvi-export-splits-and-coverages)

contig                  sample_1    sample_2    sample_3 ...
Day1_contig1_split1     5.072727    4.523432    1.2343243         
Day1_contig1_split2     6.895844    5.284812    9.3721947
Day1_contig2_split1     2.357049    3.519150    8.2385691
...

Example for genes

(the type of output you would get from anvi-export-gene-coverage-and-detection)

key       sample_1    sample_2    sample_3 ...
13947     10.29109    1.984394    6.8289432         
13948     34.89584    6.284812    3.3721947
23026     23.94938    9.239235    13.238569
...

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