Parentage package

Search for paternity according to ICAR recommendations https://www.icar.org/Documents/GenoEx/ICAR%20Guidelines%20for%20Parentage%20Verification%20and%20Parentage%20Discovery%20based%20on%20SNP.pdf

https://www.icar.org/Documents/GenoEx/ICAR%20Guidelines%20for%20Parentage%20Verification%20and%20Parentage%20Discovery%20based%20on%20SNP.pdf

class snplib.parentage.Discovery(isag_markers: Series | list | set | None = None)[source]

Bases: object

Search for paternity according to ICAR recommendations

Parameters:

isag_markers – Fixed sample of markers to confirm paternity.

__status_define() → None
property num_conflicts: None | int
property perc_conflicts: None | float
search_parent(data: DataFrame, descendant: str, parents: str, snp_name_col: str) → None[source]

Search for paternity.

Parameters:

  • data – SNP data for descendant and parent.

  • descendant – Columns name of the descendant in the data.

  • parents – Columns name or list name of the parents in the data.

  • snp_name_col – SNP columns name is data.

property status: None | str

The status of each parent discovered.

class snplib.parentage.Verification(isag_marks: Series | list | set | None = None)[source]

Bases: object

Verification of paternity according to ICAR recommendations.

Parameters:

isag_marks – Fixed sample of markers to confirm paternity.

check_on(data: DataFrame, descendant: str, parent: str, snp_name_col: str) → None[source]

Verification of paternity according to ICAR recommendations.

Parameters:

  • data – SNP data for descendant and parent.

  • descendant – Columns name of the descendant in the data.

  • parent – Columns name of the parent in the data.

  • snp_name_col – SNP column name in data.

property num_conflicts: None | int
property status: None | str
snplib.parentage.isag_disc() → DataFrame[source]
snplib.parentage.isag_verif() → DataFrame[source]