tangNonRepro: Information about entanglement events of non-reproductively...

In robschick/tangled: Creates data objects and plots for Knowlton, Schick et al. manuscript on entanglement

Information about entanglement events of non-reproductively active whales

Description

Whereas tangleOut contains all the filtered information on the entanglement events, tangNonRepro contains the same information for all the non-reproductively active females. Note that this can include reproductively active females but only for the times before they have their first calf. In other words, it contains males of all ages, and females up until they've had a calf. Once they've had a calf, the event gets tallied in tangRepro

Usage

tangNonRepro

Format

A data frame of 797 rows and 22 columns:

EGNo

4 number code that identifies individual right whales

EventNo

Integer labelling the consecutive number of each entanglement event

StartDate

A time variable describing the estimated first date of the entanglement event

EndDate

A time variable describing the end of the entanglement event

Severity

One of three categories of worsening injury: minor, moderate, severe. These are standard definitions created by NEA

gear

Integer variable describing whether or not the animal is carrying gear as part of the entanglement: 0 for no gear; 1 for gear

StartDateWindow

Date of the altered start of the window using rules outlined below

EndDateWindow

Date of the end of the window - same as EndDate

LastDatewGear

Date of the last photographic observation of the whale where it was seen carrying gear

LineGone

Date of the first time the animal was confirmed to be free of gear

firstSevere

Date of the first (if any) severe entanglement event experienced by the individual whale. This is used as a flag to make sure we do not include any subsequent events in the health calculations, i.e. once an animal has had a severe event, they are forever impaired.

recov12months

Date of 12 months past the entanglement event. Note that this means different things for different animals. For animals that are known to carry gear, this is 12 months past either LastDatewGear or LineGone (whichever is finite); for non-gear carrying whales this is 12 months beyond EndDateWindow

firstCalf

Date format denoting January of the first year during which the whale was observed with a calf. This is used in establishing the before/after calf status of the animal for documenting health

firstCalfidx

Integer corresponding to the location in myName of the date in firstCalf

smonyr

Character version of StartDate designed to intersect with myName to peel off the health values in the matrix of estimated heatlh, e.g. '2-1986'

emonyr

Character version of EndDate designed to intersect with myName to peel off the health values in the matrix of estimated heatlh, e.g. '2-1986'

swindmonyr

Character version of StartDateWindow designed to intersect with myName to peel off the health values in the matrix of estimated heatlh, e.g. '2-1986'

ewindmonyr

Character version of EndDateWindow designed to intersect with myName to peel off the health values in the matrix of estimated heatlh, e.g. '2-1986'

fsevmonyr

Character version of firstSevere designed to intersect with myName to peel off the health values in the matrix of estimated heatlh, e.g. '2-1986'

rec12monyr

Character version of recov12months designed to intersect with myName to peel off the health values in the matrix of estimated heatlh, e.g. '2-1986'

afterCalf1

Logical of whether or not the entanglement event is after the first calving event (firstCalf)

robschick/tangled documentation built on May 9, 2022, 4:07 p.m.