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Wikipedia:WikiProject Tree of Life/Cladogram requests/Archive 2

< Wikipedia:WikiProject Tree of Life‎ | Cladogram requests
Archive 1 Archive 2 Archive 3 Archive 4 Archive 5

Thalassodromeus alternate cladogram

Per a request by Lusotitan, it could be good to show a radically different tree, such as in this paper:[1] Figure 2 on page 4 (only showing Dsungaripteromorpha). Might need help from IJReid as to how to place them side by side. FunkMonk (talk) 12:03, 27 December 2018 (UTC)

Dsungaripteromorpha

Loopy30 (talk) 12:52, 27 December 2018 (UTC)

Dsungaripteromorpha - labeled

Dsungaripteromorpha

Loopy30 (talk) 13:20, 27 December 2018 (UTC)

Looks good! Now that I think of it, could a version be made that inclides Neoazhdarchia, while not showing individual species in that branch, only the two major clade names (Azhdarchidae and Chaoyangopteridae)? FunkMonk (talk) 16:02, 27 December 2018 (UTC)
Neoazhdarchia
Done. IJReid {{T - C - D - R}} 16:18, 27 December 2018 (UTC)
Thanks! How can I place it side by side with the current cladogram? FunkMonk (talk) 16:33, 27 December 2018 (UTC)
Popping it into the article now. IJReid {{T - C - D - R}} 16:37, 27 December 2018 (UTC)
Looks good. How can I add a caption, like in Elasmosaurus? FunkMonk (talk) 16:46, 27 December 2018 (UTC)
I wrote a prototype template a few months ago for putting cladograms in galleries or in the sidebar (similar to {{cladogram}} in the latter case}. The template is {{clade gallery}} and an example is in Pancrustacea. There are various options for positioning (left/right/centre; horizontal or vertical) and annotating (header and footer for each element, caption for the whole group). I had intended to revisit this at some stage so feedback on what would be improvements would be welcome.   Jts1882 | talk  17:14, 27 December 2018 (UTC)
FunkMonk Just add in the label you want between the {{col-2}} template and the beginning of the cladogram itself: {{Clade. Jts1882 I'll check out your template, sounds like a cool idea IJReid {{T - C - D - R}} 17:19, 27 December 2018 (UTC)
Below is a generic example showing options for caption, headers and footers.   Jts1882 | talk  17:22, 27 December 2018 (UTC)
Main Gallery Caption
Caption 1
Header 1
Label

Leaf A

Leaf B

Leaf C

Footer for cladogram 1
Caption 2
Header 2
Label

Leaf A

Leaf B

Leaf C

Footer for cladogram 2
Footer for whole gallery
Main Gallery Caption
Caption 1
Header 1
Label

Leaf A

Leaf B

Leaf C

Footer for cladogram 1
Caption 2
Header 2
Label

Leaf A

Leaf B

Leaf C

Footer for cladogram 2
Caption 3
Header 3
Label

Leaf A

Leaf C

Leaf B

Footer for cladogram 3
Footer for whole gallery
When more than two cladograms are wanted side-by-side I think this will be very useful, but personally I prefer the column separation used for two cladograms in Europasaurus for example because it is cleaner looking and can be modified to be more versatile with a little tweaking. IJReid {{T - C - D - R}} 17:34, 27 December 2018 (UTC)
This template may be useful in the Thalassodromidae article, where all three arrangements are shown in small cladograms that don't break down to the species level. Lusotitan (Talk | Contributions) 18:37, 27 December 2018 (UTC)
I think the main advantage is for adding captions, headers, and footers. Otherwise there are other simple alternatives. My thinking is I like to have one general purpose solution that I am familiar with that can be customised (this thinking biases the design). The width and height parameters can deal with the spacing, and removing the caption, headers and footers leaves a simpler output. This template is an alternative to add to existing solutions that might be useful sometimes. Is there something that could make it more useful?   Jts1882 | talk  21:01, 27 December 2018 (UTC)

Pitta

Hi, I could use two cladograms for the article pitta, based on this cladogram based on this study. I would one showing the relationships of the pittas to the other families of Old World suboscines (including the Sapayoa) and, less importantly, one showing the three genera within the Pittadae. Many thanks. Sabine's Sunbird talk 22:30, 20 January 2019 (UTC)

Hi Sabine's Sunbird, I will try and help if you could describe which cladogram you would like to replicate. As the first link does not display fully (closed to subscribers only), is it figure 2 on page 486 of the second link (full article)? Do you want just family level and above? Loopy30 (talk) 02:36, 21 January 2019 (UTC)
Weird, I'm not a subscriber. Yes, it is figure two that I want to show, only without all the species level detail. I am hoping to get the family level one for starters yes. The if possible a simple one of the three pitta genera. Sabine's Sunbird talk 02:42, 21 January 2019 (UTC)

Pitta


Loopy30 (talk) 03:22, 21 January 2019 (UTC)

Thunnus

It would be great if we could present the significantly different phylogenetic reconstruction for true tunas Thunnus.

I've struggled/failed at making the tree below... Phylogeny is presented in the cited paper.

T. alalunga

Phylogenetic tree of genus Thunnus with yellowfin group in green.[1]

Sample

This one? Loopy30 (talk) 23:46, 20 February 2019 (UTC)

Yes, that's perfect - thank you! IcknieldRidgeway (talk) 18:07, 21 February 2019 (UTC)

References

  1. ^ Díaz-Arce, Natalia; Arrizabalaga, Haritz; Murua, Hilario; Irigoien, Xabier; Rodríguez-Ezpelata, Naiara (2016). "RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas". Molecular Phylogenetics and Evolution. 102: 202–207. doi:10.1016/j.ympev.2016.06.002. hdl:10754/612968. PMID 27286653.

Blue-eyed shags of New Zealand

I was wondering if I could get a cladogram of the blue-eyed shags of New Zealand to add to Chatham shag (and others eventually). The cladogram I'd like to use is Fig 2 from this study; I don't need the location data, just the species. Also note that the Kohatu shag doesn't have a page yet on Wikipedia, but as I work through this it's on my list to add. Cheers. Sabine's Sunbird talk 20:31, 29 March 2019 (UTC)

How about this? Do you need the three outgroup species as well? Loopy30 (talk) 21:57, 29 March 2019 (UTC)

Perfect, thanks so much! I may ask for the outgroups at some point but for Chatham shag and king shag this is all I need. Sabine's Sunbird talk 23:17, 29 March 2019 (UTC)

Eopteranodon

I would like to request a cladogram for Eopteranodon based on the phylogenetic analysis conducted in this study (Fig 16). Specifically, the clade I need covered is the Eopteranodon/Bennettazhia group. Zach Varmitech (talk) 21:59, 21 June 2019 (UTC)

Eopteranodon cladogram

How's this? [1]

Bennettazhia oregonensis

LMK what you think. --Nessie (talk) 02:40, 22 June 2019 (UTC)

That's just what I needed, thank you! Zach Varmitech (talk) 14:13, 22 June 2019 (UTC)
@Zach Varmitech: just fixed some typos. Sorry. --Nessie (talk) 16:24, 22 June 2019 (UTC)

References

  1. ^ Longrich, Nicholas R.; Martill, David M.; Andres, Brian (13 March 2018). "Late Maastrichtian pterosaurs from North Africa and mass extinction of Pterosauria at the Cretaceous-Paleogene boundary". PLOS Biology. 16 (3): e2001663. doi:10.1371/journal.pbio.2001663. PMC 5849296. PMID 29534059.

Camphorlynchus wrens cladogram

Howdy hello folks! I'm working on getting Cactus wren to FA, and it'd be great if I could have a sweet cladogram to go with it (as well as put in some other wren pages). I'm specifically thinking one based off of figure 1B in this paper. The paper has 3 equally likely cladograms, but they seem to use cladogram 1B more than the other cladograms they create, and to draw their conclusions, so it seems the best candidate. Thanks in advance! Captain Eek Edits Ho Cap'n!⚓ 23:21, 15 August 2019 (UTC)

Try this CaptainEek I've left it unlinked because none seemed to be proper and I didn't get why. Edit: I've linked it, was spelling the genus wrong IJReid {{T - C - D - R}} 01:06, 16 August 2019 (UTC)
Campylorhynchus
@IJReid: Thank you so much!! This is great. Captain Eek Edits Ho Cap'n!⚓ 01:54, 16 August 2019 (UTC)

Saurornitholestes

I'm requesting a cladogram for Saurornitholestes based on the cladogram from this study. Zach Varmitech (talk) 01:55, 28 September 2019 (UTC)

Hi Zach Varmitech, can you email me a copy of the page in the reference? My library only holds copies to 2006. Loopy30 (talk) 02:29, 29 September 2019 (UTC)
Here is first draft:
Dromaeosauridae
Unenlagiinae

Mahakala omnogovae

Cheers, Loopy30 (talk) 03:33, 3 October 2019 (UTC)

Now that I can see the cladogram in Wikipedia format, I realize it's too big. Could you cut it down to just Eudromaeosauria? Thanks. Zach Varmitech (talk) 15:10, 3 October 2019 (UTC)
Eudromaeosauria
Reduced version.   Jts1882 | talk  15:18, 3 October 2019 (UTC)
This is perfect, thank you! Zach Varmitech (talk) 20:08, 3 October 2019 (UTC)

Pooideae

Could I get an updated cladogram for Pooideae following Soreng et al. 2017 (the current cladogram is following an earlier paper by the same authors). Plantdrew (talk) 02:53, 29 October 2019 (UTC)

bamboos (Bambusoideae)

Pooideae

Brachyelytreae

Nardodae

Duthieeae

Phaenospermateae

Melicodae
Stipodae

Diarrheneae

"core Pooideae"

Brachypodieae

Triticodae
Poodae
Poeae
chloroplast group 1

Torreyochloinae

Phalaridinae

Anthoxanthinae

Aveninae

Agrostidodinae

Brizinae

Echinopogoninae

Agrostideae

Calothecinae

(Aveninae type)
chloroplast group 2

Coleanthinae

Poodinae

Miliinae

Poinae

Phleinae

Beckmanniinae

Cinninae

Alopecurinae

Ventenatinae

Sesleriinae

Holcinae

Scolochloinae

Airinae

Aristaveninae

Loliodinae

Loliinae

Dactylidinae

Cynosurinae

Parapholiinae

Ammochloinae

(Poinae type)
The only change from the article one is the addition of Duthieeae (is that really the spelling?). Do you want furtherbreak down of Poeae? [Edit: I've added the subtribes for Poeae as a subtree that can be easily deleted]   Jts1882 | talk  09:08, 29 October 2019 (UTC)
Thank you. What I wanted (but didn't specify) was labels for supertribes. Supertribes aren't labelled in Soreng's cladogram, but are given in the synopsis starting on page 283 (page 25 of the PDF). Plantdrew (talk) 16:08, 29 October 2019 (UTC)

Durvillaea southern bull kelp

Hi, would someone please help reproduce the phylogeny in Figure 7 in this paper: https://onlinelibrary.wiley.com/doi/full/10.1111/jpy.12939 as a cladogram? I really want to expand the content on the Durvillaea Wikipedia pages, and this tree helps a lot to clarify the current status of knowledge in the genus. The branch lengths don't necessarily need to be proportionate (as in the phylogeny) if this is a hassle - it can be a simple cladogram of relationships.

Thanks!

IcknieldRidgeway (talk) 02:08, 27 November 2019 (UTC)

I'll get this one moment, I'll do what I can about replicating branch lengths as well. IJReid {{T - C - D - R}} 02:37, 27 November 2019 (UTC)
w
w

D. willana

w

D. potatorum

w

D. amatheiae

w
w

D. fenestrata

w
w

D. incurvata

w
w

D. poha

w
w

D. chathamensis

D. antarctica (NZ north)

w
w

D. antarctica (NZ south)

D. antarctica (Subantarctic and Chilean)

OR

D. willana

D. potatorum

D. amatheiae

D. fenestrata

D. incurvata

D. poha

D. chathamensis

D. antarctica (NZ north)

D. antarctica (NZ south)

D. antarctica (Subantarctic and Chilean)

You should avoid hiding a character hidden by making it white as it skin/appearance dependent. It will show up with some accessibility options (e.g. the "w" shows in the green on black display option). A non-breaking space (&nbsp;) is an alternative.
To make such spacing easier, I've added a new parameter |branch=. As implemented it takes CSS styling. e.g. |branch=width:3.8em;. Would a simple length parameter (e.g. |length=3.8em;) be better?   Jts1882 | talk  08:35, 27 November 2019 (UTC)
Jts1882 I wasn't aware you were editing {{clade}}, a |brance=3.8em or something equivalent would be fantastic. I always base the widths in em as well because the basic width of one template branch is 0.5em, that should probably be noted somewhere. IJReid {{T - C - D - R}} 16:14, 27 November 2019 (UTC)
I converted the {{clade}} to Lua a few years ago and have been slowing adding features. I've been a bit remiss is updating the documentation, but have recently added descriptions for some new features.
Using the width of the label cell to try and reflect time the way you did with the div elements was not something I had considered before. It will never be perfect because of the way the cladogram is constructed as a HTML table, but you have shown it is possible to make a decent approximation. So now the question is how to best support the method with parameters. I'll follow this up on the talk page.   Jts1882 | talk  07:49, 28 November 2019 (UTC)
Cladogram of Durvillaea

D. willana

D. potatorum

D. amatheiae

D. fenestrata

D. incurvata

D. poha

D. chathamensis

D. antarctica (NZ north)

D. antarctica (NZ south)

D. antarctica (Subantarctic and Chilean)

Hi, the last option looks fantastic, thank you! I have a quick follow-up question: is there a way to make the cladogram show as you have it above, within the labelled box below? It's currently squished. Or is the box unnecessary, and is there a nicer way to present it on a page?

Cladogram of Durvillaea

D. willana

D. potatorum

D. amatheiae

D. fenestrata

D. incurvata

D. poha

D. chathamensis

D. antarctica (NZ north)

D. antarctica (NZ south)

D. antarctica (Subantarctic and Chilean)

Thanks so much for your help!


IcknieldRidgeway (talk) 09:23, 27 November 2019 (UTC)

I've added a width to the first {{clade}} in your example using {{cladogram}}. An alternative is to use {{clade gallery}} which has more options. I've added it to my example above.   Jts1882 | talk  09:48, 27 November 2019 (UTC)


This is perfect, thank you both! IcknieldRidgeway (talk) 21:48, 27 November 2019 (UTC)

Hartman et al. 2019 cladograms

Greetings, I'm requesting Dromaeosauridae, Ornithomimosauria and Therizinosauria cladograms based on the Lori matrix:

Hartman, S.; Mortimer, M.; Wahl, W. R.; Lomax, D. R.; Lippincott, J.; Lovelace, D. M. (2019). "A new paravian dinosaur from the Late Jurassic of North America supports a late acquisition of avian flight". PeerJ. 7: e7247. doi:10.7717/peerj.7247. PMC 6626525. PMID 31333906.

These were a bit difficult because the TNT export file was too large for PeerJ to actually fit in the supplementary material at a size that shows everything, so what I can't tell is supplemented from Mortimer's posts on her blog. Cutting out the external relationships is easy enough if wanted, on the group pages I'd leave them in though. IJReid {{T - C - D - R}} 02:37, 30 January 2020 (UTC)
I have a PNG version of the tree direct from the supp info. I'll do a pass through and check. Lythronaxargestes (talk | contribs) 03:08, 30 January 2020 (UTC)
I corrected the Dromaeosauridae cladogram: Acheroraptor and what I assume to be Velociraptor osmolskae were missing. Lythronaxargestes (talk | contribs) 03:31, 30 January 2020 (UTC)
I change the Paraves branch of the Maniraptora tree to show Paraves as sister to Oviraptorosauria, with this clade (Pennaraptora) as sister to Protarchaeopteryx as in Figs 17, 18 & S2.   Jts1882 | talk  11:14, 30 January 2020 (UTC)
This is the best thing ever, thank you guys! PaleoNeolitic (talk) 16:39, 31 January 2020 (UTC)


Maniraptora
Ornithomimosauria
Deinonychosauria

Fernández-Baldor et al. 2017

Fernández-Baldor, F. T.; Canudo, J. I.; Huerta, P.; Moreno-Azanza, M.; Montero, D. (2017). "Europatitan eastwoodi, a new sauropod from the lower Cretaceous of Iberia in the initial radiation of somphospondylans in Laurasia". PeerJ. 5: e3409. doi:10.7717/peerj.3409. PMC 5490465. PMID 28674644.

Hey guys, it's me again. This time I'm requesting the cladogram for the Somphospondyli to be added on Erketu; currently working on it. קคɭє๏ภє๏ɭเՇเς 17:07, 11 April 2020 (UTC)

First draft.

Somphospondyli

Lythronaxargestes (talk | contribs) 18:57, 11 April 2020 (UTC)

Thanks! It is nicely rigorous to the one in the paper, a fine addition to Somphospondyli. קคɭє๏ภє๏ɭเՇเς 03:16, 12 April 2020 (UTC)
I see you've collapsed Titanosauria on Erketu — sorry, didn't realize you wanted that! Lythronaxargestes (talk | contribs) 04:47, 12 April 2020 (UTC)
Lol no worries, I was going to include the entire cladogram but there was too much blank space. קคɭє๏ภє๏ɭเՇเς 17:00, 12 April 2020 (UTC)

Automatic cladogram

Since we already have taxa in correct order with Template:Automatic taxobox, can we use this info to create something like {{Automatic cladogram}}? The idea is you put two parameters, name and depth and it would automatically draw a cladogram for you. For example: {{Automatic cladogram|Dinosauria|2}} would create a cladogram with Dinosaur as parent and two taxon ranks below.  Dinosaur (talk) 🌴🦕🦖 -- 20:34, 15 April 2020 (UTC)

Note: this discussion is a duplicate of Wikipedia_talk:Automated_taxobox_system#Automatic_cladogram. Please discuss this proposal there. Primefac (talk) 21:07, 15 April 2020 (UTC)
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