pn-ps-data

A CONCEPT-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-get-pn-ps-ratio

Required or used by

There are no anvi’o tools that use or require this artifact directly, which means it is most likely an end-product for the user.

Description

This describes the output of anvi-get-pn-ps-ratio, which calculates the pN/pS ratio for each gene in a contigs-db.

See the page for anvi-get-pn-ps-ratio for an explanation of the pN/pS ratio

This describes a directory that contains the following four files:

pNpS.txt: a long-format table of the pN/pS values, along with the groupby variables:

	corresponding_gene_call	sample_id	pNpS_reference
0	1744	ANE_004_05M	0.043503524536208836
1	1744	ANE_004_40M	0.043628712253629943
2	1744	ANE_150_05M	0.03810623760551494
3	1744	ANE_150_40M	0.040815421982026576

pN.txt: a long-format table of the pN values, along with the groupby variables:

	corresponding_gene_call	sample_id	pN_reference
0	1744	ANE_004_05M	11.827627600424583
1	1744	ANE_004_40M	11.106801744995472
2	1744	ANE_150_05M	9.62355553228605
3	1744	ANE_150_40M	10.067364489809782

pS.txt: a long-format table of the pS values, along with the groupby variables:

	corresponding_gene_call	sample_id	pS_reference
0	1744	ANE_004_05M	271.87745651689016
1	1744	ANE_004_40M	254.57551165909962
2	1744	ANE_150_05M	252.54541348089631
3	1744	ANE_150_40M	246.6558962502711

num_SCVs.txt: a long-format table of the number of SCVs belonging to each group:

	corresponding_gene_call	sample_id	num_SCVs
0	1744	ANE_004_05M	180
1	1744	ANE_004_40M	166
2	1744	ANE_150_05M	162
3	1744	ANE_150_40M	160

Edit this file to update this information.