[FLR-list] size

[Santiago Cerviño]

Hi,

 

The way GADGET deals with this is thorough text aggregation files that translate names to length bins in the computations. Something like:

 

# nam   low      up

Len1     1          5

Len2     5          12

Len3     12        20

Len4     20        30

...

 

If we do not like to have many extra files, the use of labels with the boundaries (Len1_5, Len5_12, Len12_20, etc) may also be a good option.

 

Santi

 

 

________________________________

De: flr-list-bounces at lists.r-forge.r-project.org [mailto:flr-list-bounces at lists.r-forge.r-project.org] En nombre de Laurie Kell
Enviado el: 22 May 2013 13:23
Para: flr-list at flr-project.org
Asunto: Re: [FLR-list] size

 

There is an issue, boring but may be important to agree on now, i.e. labeling of length bins.

What does a length bin mean, i.e. if the "quant" dim represents length? and the values are 5, 10, ...?

In the mixdist package these are the righthand boundaries i.e. they represent (0,5] and (5,10]. But if they are the lefthand boundaries then they represent (5,10] and (10,INF]. Or they could be midpoints. One option would be to explicitly label the bins with the boundaries and then have methods for going backwards and forwards between parametric and non-parametric methods. Or to have an attribute that tracks the properties.

Otherwise I can see a lot of time being wasted in stock assessments. well more than normal.

Laurie 

 

On Wed, May 22, 2013 at 1:07 PM, Ernesto <ernesto.jardim at jrc.ec.europa.eu> wrote:

On 05/22/2013 12:02 PM, Ernesto wrote:

On 05/22/2013 11:34 AM, Sarah Kraak wrote:

Hi FLR-guys,

As you know I am not an active FLR user, but last year I showed some interest in whether you have size-based stuff in FLR (see attached email). In the meanwhile Coilin Minto and myself have been working on something (also attached - note this is a draft of the idea; at the moment we are working on the code to get the final graphs out) which we are coding in R but which could/should eventually been done in FLR. Perhaps you are interested.

Cheers,
Sarah


Hi,

Following Laurie's suggestion I've started a git repository for length
methods in FLRhttps://github.com/ejardim/FLMethLen

Maybe our first task should be o write down what we're doing with length
data. Laurie's working on ALKs, so I guess you're interested in
converting length frequencies to ages for stock assessment !? We (a4a)
are working on OMs and how to generate them from length based data so
that uncertainty on the growth model can be included in the MSE. Sarah
and Colin Minto are working on selectivity. What else ?

Best

EJ

Hi,

I've updated the readme to reflect the latest messages.



EJ

-- 
Ernesto Jardim<ernesto.jardim at jrc.ec.europa.eu>
Fisheries Scientist
FISHREG - Scientific Support to Fisheries
IPSC Maritime Affairs Unit
EC Joint Research Center
TP 051, Via Enrico Fermi 2749
I-21027 Ispra (VA), Italy
Office : +39 0332 785311 <tel:%2B39%200332%20785311> 
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https://fishreg.jrc.ec.europa.eu/


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