slim-discuss

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Welcome to slim-discuss! Please find general information and downloads for SLiM at http://messerlab.org/slim/. There is a free online SLiM workshop at http://benhaller.com/workshops/workshops.html.

IF YOU WISH TO JOIN, YOU MUST SUPPLY A SLIM-RELATED "REASON FOR JOINING" IN YOUR REQUEST. This is how we keep spammers out of the group.

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Ben Haller

Sep 6

Four SLiM Workshops in Europe, 2025

Hi folks! I'm excited to announce that there will be FOUR SLiM workshops in Europe in the summer

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Four SLiM Workshops in Europe, 2025

Hi folks! I'm excited to announce that there will be FOUR SLiM workshops in Europe in the summer

Sep 6

sonal H, Ben Haller2

Sep 6

Multiple threads

Hi Sonal! Yes, SLiM is only single-threaded at this time. Was there something in particular that gave

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Multiple threads

Hi Sonal! Yes, SLiM is only single-threaded at this time. Was there something in particular that gave

Sep 6

STEVEN VAN BELLEGHEM, … Ben Haller5

Aug 30

empty population and chromosome view window

Hi all. Just a followup on this issue. I've added a checkbox to SLiM's Preferences panel that

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empty population and chromosome view window

Hi all. Just a followup on this issue. I've added a checkbox to SLiM's Preferences panel that

Aug 30

Ben Haller

Aug 29

new SLiM-Extras stuff

Hi folks! A quick heads-up about some new goodies on SLiM-Extras: https://github.com/MesserLab/SLiM-

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new SLiM-Extras stuff

Hi folks! A quick heads-up about some new goodies on SLiM-Extras: https://github.com/MesserLab/SLiM-

Aug 29

sonal H, … Ben Haller4

Aug 28

Ms output of slim

Thanks Miguel and Ben On Wed, Aug 28, 2024 at 7:10 PM sonal H <sonalho...@gmail.com> wrote:

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Ms output of slim

Thanks Miguel and Ben On Wed, Aug 28, 2024 at 7:10 PM sonal H <sonalho...@gmail.com> wrote:

Aug 28

Daniel Pelletier, Ben Haller2

Aug 21

Graphical bug for individual and chromosome views

Hi Daniel! There's an open issue on this problem on GitHub: https://github.com/MesserLab/SLiM/

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Graphical bug for individual and chromosome views

Hi Daniel! There's an open issue on this problem on GitHub: https://github.com/MesserLab/SLiM/

Aug 21

Ben Haller

Aug 14

SLiM Workshop in New York City, October 28 - November 1, 2024

Hi folks! There will be a SLiM Workshop at the American Museum of Natural History in New York City,

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SLiM Workshop in New York City, October 28 - November 1, 2024

Hi folks! There will be a SLiM Workshop at the American Museum of Natural History in New York City,

Aug 14

João Pedro Meireles, Ben Haller3

Aug 13

Stopping simulation when founding Pop2 out of Pop1

Thank you so much for the detailed answer Ben! Cheers, João A quinta-feira, 8 de agosto de 2024 à(s)

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Stopping simulation when founding Pop2 out of Pop1

Thank you so much for the detailed answer Ben! Cheers, João A quinta-feira, 8 de agosto de 2024 à(s)

Aug 13

Ben Haller

Aug 1

SLiM QR code images

Hey folks! By popular demand, I've added an image of the SLiM QR code to the website. You can put

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SLiM QR code images

Hey folks! By popular demand, I've added an image of the SLiM QR code to the website. You can put

Aug 1

Jenna P, Peter Ralph2

Jul 31

Logging custom outputs in metapopulation

Hi, Jenna! The issue is one of "scope" - the text you put into addMeanSDColumns to create

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Logging custom outputs in metapopulation

Hi, Jenna! The issue is one of "scope" - the text you put into addMeanSDColumns to create

Jul 31

sonal H, Ben Haller3

Jul 30

Don't know why this error is coming up

Thanks Ben On Monday, July 29, 2024 at 5:38:49 PM UTC+5:30 Ben Haller wrote: Hi Sonal! It looks like

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Don't know why this error is coming up

Thanks Ben On Monday, July 29, 2024 at 5:38:49 PM UTC+5:30 Ben Haller wrote: Hi Sonal! It looks like

Jul 30

Varvara Yudina, Ben Haller2

Jul 28

Haplotype plots

Hi Varvara, I'm not sure I can explain it any better than I do in the manual – I did my best with

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Haplotype plots

Hi Varvara, I'm not sure I can explain it any better than I do in the manual – I did my best with

Jul 28

Manas G. A., … Peter Ralph5

Jul 26

Changing selection coefficients and loading from a .trees file

Hi Ben! Thanks for your response. What I would really like to do is the following: Step (1) - Run a

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Changing selection coefficients and loading from a .trees file

Hi Ben! Thanks for your response. What I would really like to do is the following: Step (1) - Run a

Jul 26

Stylianos Mavrianos, Ben Haller3

Jul 26

Help with Simulating Beneficial SNP and Linked Neutral Mutations

Hi Ben, Thank you very much for your quick answer, I will look into it. Best, Stylianos On Thursday,

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Help with Simulating Beneficial SNP and Linked Neutral Mutations

Hi Ben, Thank you very much for your quick answer, I will look into it. Best, Stylianos On Thursday,

Jul 26

Augustin Desprez, Ben Haller5

Jul 24

General : is SLiM able to simulate plant breeding ?

Thank you very much for your answer, I will look into it. I may do a feedback in a few weeks/months

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General : is SLiM able to simulate plant breeding ?

Thank you very much for your answer, I will look into it. I may do a feedback in a few weeks/months

Jul 24

João Pedro Meireles, … Ben Haller6

Jul 16

Giving name to populations

Hey all. Just following up on this thread about user-assigned names for subpopulations. I've just

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Giving name to populations

Hey all. Just following up on this thread about user-assigned names for subpopulations. I've just

Jul 16

Ben Haller

Jul 15

SLiM at the Evolution conference in Montreal

Hi folks! Just a quick post to let you all know that I will be at the Evolution conference in

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SLiM at the Evolution conference in Montreal

Hi folks! Just a quick post to let you all know that I will be at the Evolution conference in

Jul 15

Viv, Ben Haller6

Jul 14

Sampling siblings

Hi Viv! I tweaked your output code a bit to help investigate this: ids = p1.individuals.

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Sampling siblings

Hi Viv! I tweaked your output code a bit to help investigate this: ids = p1.individuals.

Jul 14

Ekaterina Korotkevich, Ben Haller2

Jul 12

Modeling back mutations for haploid organisms

Hi Ekaterina! I'd recommend you look at section 18.15; it is geared towards nucleotide-based

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Modeling back mutations for haploid organisms

Hi Ekaterina! I'd recommend you look at section 18.15; it is geared towards nucleotide-based

Jul 12

Eugenio López Cortegano, … Ben Haller5

Jul 9

What is the Eidos equivalent of the R operator %in% ?

Yes, Peter's solution is better as long as the tag values are unique – in other words, as long as

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What is the Eidos equivalent of the R operator %in% ?

Yes, Peter's solution is better as long as the tag values are unique – in other words, as long as

Jul 9

Peter Ralph

Jul 5

syntax highlighting of SLiM code in LaTeX

Hi, all - some of you might find the following useful. Here: https://github.com/MesserLab/SLiM-Extras

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syntax highlighting of SLiM code in LaTeX

Hi, all - some of you might find the following useful. Here: https://github.com/MesserLab/SLiM-Extras

Jul 5

João Pedro Meireles, … Peter Ralph5

Jul 5

Simulating a reintroduction programme (ex situ to in situ)

Hello Victor Quick question: I just came from reading your publication (Amazing btw). In your

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Simulating a reintroduction programme (ex situ to in situ)

Hello Victor Quick question: I just came from reading your publication (Amazing btw). In your

Jul 5

Yazzi McDonough, Ben Haller2

Jul 4

Simulating autosomes and X-chromosomes (at the same time)

Hi Yazzi! Your approach sounds good, and you found the relevant sections – 14.5, in particular. Note

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Simulating autosomes and X-chromosomes (at the same time)

Hi Yazzi! Your approach sounds good, and you found the relevant sections – 14.5, in particular. Note

Jul 4

Débora Brandt, … Miguel de Navascués7

Jun 28

output tree sequence for subset of individuals

Thanks, that is very helpful! I might try to use that trick. I just wanted to add a note that I

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output tree sequence for subset of individuals

Thanks, that is very helpful! I might try to use that trick. I just wanted to add a note that I

Jun 28

Peter Laurin, … Peter Ralph6

Jun 27

Not achieving expected diversity metrics in simple diploid and haploid simulations

Thanks I'll try this out! Peter On Thursday, June 27, 2024 at 10:15:05 AM UTC-7 Peter Ralph wrote

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Not achieving expected diversity metrics in simple diploid and haploid simulations

Thanks I'll try this out! Peter On Thursday, June 27, 2024 at 10:15:05 AM UTC-7 Peter Ralph wrote

Jun 27

Grace Rhodes, … Peter Ralph3

Jun 16

Adapting Gravel et al Recipe to Include Increased Growth Rate In Recent Epoch

I agree with Chase (thanks!). But, let me add one more thing - "what's expected" from

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Adapting Gravel et al Recipe to Include Increased Growth Rate In Recent Epoch

I agree with Chase (thanks!). But, let me add one more thing - "what's expected" from

Jun 16

Ravi Vishwakarma, Ben Haller5

Jun 13

Sampling individuals and calculating microsat expected Heterozygosity

So, Ravi is having trouble posting to the group (if you have difficulties, I recommend using the web

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Sampling individuals and calculating microsat expected Heterozygosity

So, Ravi is having trouble posting to the group (if you have difficulties, I recommend using the web

Jun 13

Padovani, Giada, Ben Haller5

Jun 13

same SpatialMap for two subpopulations

No worries, this feature is a bit hidden – probably somebody else just learned about it because of

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same SpatialMap for two subpopulations

No worries, this feature is a bit hidden – probably somebody else just learned about it because of

Jun 13

Jared Grummer, Ben Haller3

Jun 12

Modeling reproductive skew

Thanks, Ben! I started reading last week and then got sidetracked with some other work. I'll look

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Modeling reproductive skew

Thanks, Ben! I started reading last week and then got sidetracked with some other work. I'll look

Jun 12

Luca Soldini, … Peter Ralph4

Jun 11

Spatial non-WF model - avoiding center

Hi, Luca - the reason seems to be that the spatial position of offspring is not being set explicitly.

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Spatial non-WF model - avoiding center

Hi, Luca - the reason seems to be that the spatial position of offspring is not being set explicitly.

Jun 11