TreeRAxML_Ficus

RAxML Bootstrap Topology

Siler, Cameron D.
Oaks, Jamie R.
Cobb, Kerry
Ota, Hidetoshi
Brown, Rafe M.

February 2014

Maximum Likelihood Bootstrap topology resulting from ML analyses in the program RAxM

supermatrix_cds_bootstrap_ML

Johnson, Matthew G.
Malley, Claire
Goffinet, Bernard
Jonathan Shaw, A.
Wickett, Norman J.

February 2016

Phylogeny reconstructed from concatenated nucleotide matrix of single genes in RAXML version 8. A si...

Supplementary Fig. S6.

Seunggwan Shin (3557783)
Keith M. Bayless (3265686)
Shaun L. Winterton (130102)
Torsten Dikow (3255672)
Bryan D. Lessard (5013971)
David K. Yeates (3265707)
Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)

March 2018

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset vi, COVERAGE_ROG...

TreeRAxML_Ficus

Astrid Cruaud (159999)
Nina Rønsted (159982)
Bhanumas Chantarasuwan (759800)
Lien Siang Chou (3263919)
Wendy L. Clement (3242607)
Arnaud Couloux (6018)
Benjamin Cousins (3263937)
Gwenaëlle Genson (181496)
Rhett D. Harrison (159976)
Paul E. Hanson (3263940)
Martine Hossaert-McKey (3263931)
Roula Jabbour-Zahab (181492)
Emmanuelle Jousselin (572384)
Carole Kerdelhué (164328)
Finn Kjellberg (264614)
Carlos Lopez-Vaamonde (382663)
John Peebles (3263916)
Rodrigo Augusto Santinelo Pereira (3263943)
Tselil Schramm (3263925)
Rosichon Ubaidillah (3263928)
Simon van Noort (137133)
George D. Weiblen (2914661)
Da-Rong Yang (461838)
Yan-Qiong Peng (461839)
Anak Yodpinyanee (3263934)
Ran Libeskind-Hadas (3263922)
James M. Cook (120501)
Jean-Yves Rasplus (159990)
Vincent Savolainen (174303)

December 2016

ML analyses and associated bootstrapping (1,000 replicates) using the MPI-parallelized RAxML 7.0.4 s...

TreeRAxML_Agaonidae

Cruaud, Astrid
Rønsted, Nina
Chantarasuwan, Bhanumas
Chou, Lien Siang
Clement, Wendy L.
Couloux, Arnaud
Cousins, Benjamin
Genson, Gwenaëlle
Harrison, Rhett D.
Hanson, Paul E.
Hossaert-McKey, Martine
Jabbour-Zahab, Roula
Jousselin, Emmanuelle
Kerdelhué, Carole
Kjellberg, Finn
Lopez-Vaamonde, Carlos
Peebles, John
Pereira, Rodrigo Augusto Santinelo
Schramm, Tselil
Ubaidillah, Rosichon
van Noort, Simon
Weiblen, George D.
Yang, Da-Rong
Peng, Yan-Qiong
Yodpinyanee, Anak
Libeskind-Hadas, Ran
Cook, James M.
Rasplus, Jean-Yves
Savolainen, Vincent

October 2012

ML analyses and associated bootstrapping (1,000 replicates) using the MPI-parallelized RAxML 7.0.4 s...

RAxML_bipartitions_368

Christopher Blair (279846)
Robert W. Bryson Jr. (3246840)

February 2017

ML tree from RAxML analysis of 368 sequences (including duplicates). Nodes annotated with bootstrap ...

RAxML tree with support

Blair, Christopher
Bryson Jr., Robert
Linkem, Charles
Lazcano, David
Klicka, John
McCormack, John

November 2018

ML tree inferred through concatenated analysis of all 3384 loci. Node values represent bootstrap val...

Appendix_II

Cody E. Hinchliff (463644)
Eric H. Roalson (3196971)

December 2016

ML bootstrap majority rule consensus tree topologies from 300-replicate RAxML bootstrap searches usi...

FIGURE S8. ML tree inferred from the reference assembly data matrix

Kyung Min Lee (489747)
Sami M. Kivelä (2928486)
Vladislav Ivanov (5090081)
Axel Hausmann (127091)
Lauri Kaila (218937)
Niklas Wahlberg (7740)
Marko Mutanen (127088)

April 2018

ML tree inferred from the reference assembly data matrix. The phylogenetic tree was inferred with RA...

Tree topologies in 500kb non-overlapping windows

Stankowski, Sean
Chase, Madeline A.
Fuiten, Allison M.
Rodrigues, Murillo F.
Ralph, Peter L.
Streisfeld, Matthew A.

August 2019

This file contains ML trees estimated by RAxML using MVFtools in 500kb non-overlapping windows. Thes...

Supplementary Fig. S4.

Shin, Seunggwan
Bayless, Keith M.
Winterton, Shaun L.
Dikow, Torsten
Lessard, Bryan D.
Yeates, David K.
Wiegmann, Brian M.
Trautwein, Michelle D.

November 2017

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset iv, ALL_ROGU

ML tree from PhyML analysis of data set 2 (1,553 sequences).

Andrew Mitchell (24477)
David Gopurenko (235638)

August 2016

<p>Some clusters collapsed. Numbers in parentheses following names are number of sequences within th...

full unpartitioned raxml tree

Goodheart, Jessica A.
Bleidißel, Sabrina
Schillo, Dorothee
Strong, Ellen E.
Ayres, Daniel L.
Preisfeld, Angelika
Collins, Allen G.
Cummings, Michael P.
Wägele, Heike

November 2018

Best tree with bootstraps from RAxML run using the full raxml data matrix. This analysis was unparti...

Supplementary Fig. S1.

Shin, Seunggwan
Bayless, Keith M.
Winterton, Shaun L.
Dikow, Torsten
Lessard, Bryan D.
Yeates, David K.
Wiegmann, Brian M.
Trautwein, Michelle D.

November 2017

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset i, AL

Supplementary Fig. S7.

Seunggwan Shin (3557783)
Keith M. Bayless (3265686)
Shaun L. Winterton (130102)
Torsten Dikow (3255672)
Bryan D. Lessard (5013971)
David K. Yeates (3265707)
Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)

March 2018

Best ML tree with branch support from 100 rapid bootstrap replicates with outgroup Nematocer

RAxML Bootstrap Topology

Siler, Cameron D.
Oaks, Jamie R.
Cobb, Kerry
Ota, Hidetoshi
Brown, Rafe M.

February 2014

Maximum Likelihood Bootstrap topology resulting from ML analyses in the program RAxM

supermatrix_cds_bootstrap_ML

Johnson, Matthew G.
Malley, Claire
Goffinet, Bernard
Jonathan Shaw, A.
Wickett, Norman J.

February 2016

Phylogeny reconstructed from concatenated nucleotide matrix of single genes in RAXML version 8. A si...

Supplementary Fig. S6.

Seunggwan Shin (3557783)
Keith M. Bayless (3265686)
Shaun L. Winterton (130102)
Torsten Dikow (3255672)
Bryan D. Lessard (5013971)
David K. Yeates (3265707)
Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)

March 2018

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset vi, COVERAGE_ROG...

TreeRAxML_Ficus

Astrid Cruaud (159999)
Nina Rønsted (159982)
Bhanumas Chantarasuwan (759800)
Lien Siang Chou (3263919)
Wendy L. Clement (3242607)
Arnaud Couloux (6018)
Benjamin Cousins (3263937)
Gwenaëlle Genson (181496)
Rhett D. Harrison (159976)
Paul E. Hanson (3263940)
Martine Hossaert-McKey (3263931)
Roula Jabbour-Zahab (181492)
Emmanuelle Jousselin (572384)
Carole Kerdelhué (164328)
Finn Kjellberg (264614)
Carlos Lopez-Vaamonde (382663)
John Peebles (3263916)
Rodrigo Augusto Santinelo Pereira (3263943)
Tselil Schramm (3263925)
Rosichon Ubaidillah (3263928)
Simon van Noort (137133)
George D. Weiblen (2914661)
Da-Rong Yang (461838)
Yan-Qiong Peng (461839)
Anak Yodpinyanee (3263934)
Ran Libeskind-Hadas (3263922)
James M. Cook (120501)
Jean-Yves Rasplus (159990)
Vincent Savolainen (174303)

December 2016

ML analyses and associated bootstrapping (1,000 replicates) using the MPI-parallelized RAxML 7.0.4 s...

TreeRAxML_Agaonidae

Cruaud, Astrid
Rønsted, Nina
Chantarasuwan, Bhanumas
Chou, Lien Siang
Clement, Wendy L.
Couloux, Arnaud
Cousins, Benjamin
Genson, Gwenaëlle
Harrison, Rhett D.
Hanson, Paul E.
Hossaert-McKey, Martine
Jabbour-Zahab, Roula
Jousselin, Emmanuelle
Kerdelhué, Carole
Kjellberg, Finn
Lopez-Vaamonde, Carlos
Peebles, John
Pereira, Rodrigo Augusto Santinelo
Schramm, Tselil
Ubaidillah, Rosichon
van Noort, Simon
Weiblen, George D.
Yang, Da-Rong
Peng, Yan-Qiong
Yodpinyanee, Anak
Libeskind-Hadas, Ran
Cook, James M.
Rasplus, Jean-Yves
Savolainen, Vincent

October 2012

ML analyses and associated bootstrapping (1,000 replicates) using the MPI-parallelized RAxML 7.0.4 s...

RAxML_bipartitions_368

Christopher Blair (279846)
Robert W. Bryson Jr. (3246840)

February 2017

ML tree from RAxML analysis of 368 sequences (including duplicates). Nodes annotated with bootstrap ...

RAxML tree with support

Blair, Christopher
Bryson Jr., Robert
Linkem, Charles
Lazcano, David
Klicka, John
McCormack, John

November 2018

ML tree inferred through concatenated analysis of all 3384 loci. Node values represent bootstrap val...

Appendix_II

Cody E. Hinchliff (463644)
Eric H. Roalson (3196971)

December 2016

ML bootstrap majority rule consensus tree topologies from 300-replicate RAxML bootstrap searches usi...

FIGURE S8. ML tree inferred from the reference assembly data matrix

Kyung Min Lee (489747)
Sami M. Kivelä (2928486)
Vladislav Ivanov (5090081)
Axel Hausmann (127091)
Lauri Kaila (218937)
Niklas Wahlberg (7740)
Marko Mutanen (127088)

April 2018

ML tree inferred from the reference assembly data matrix. The phylogenetic tree was inferred with RA...

Tree topologies in 500kb non-overlapping windows

Stankowski, Sean
Chase, Madeline A.
Fuiten, Allison M.
Rodrigues, Murillo F.
Ralph, Peter L.
Streisfeld, Matthew A.

August 2019

This file contains ML trees estimated by RAxML using MVFtools in 500kb non-overlapping windows. Thes...

Supplementary Fig. S4.

Shin, Seunggwan
Bayless, Keith M.
Winterton, Shaun L.
Dikow, Torsten
Lessard, Bryan D.
Yeates, David K.
Wiegmann, Brian M.
Trautwein, Michelle D.

November 2017

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset iv, ALL_ROGU

ML tree from PhyML analysis of data set 2 (1,553 sequences).

Andrew Mitchell (24477)
David Gopurenko (235638)

August 2016

<p>Some clusters collapsed. Numbers in parentheses following names are number of sequences within th...

full unpartitioned raxml tree

Goodheart, Jessica A.
Bleidißel, Sabrina
Schillo, Dorothee
Strong, Ellen E.
Ayres, Daniel L.
Preisfeld, Angelika
Collins, Allen G.
Cummings, Michael P.
Wägele, Heike

November 2018

Best tree with bootstraps from RAxML run using the full raxml data matrix. This analysis was unparti...

Supplementary Fig. S1.

Shin, Seunggwan
Bayless, Keith M.
Winterton, Shaun L.
Dikow, Torsten
Lessard, Bryan D.
Yeates, David K.
Wiegmann, Brian M.
Trautwein, Michelle D.

November 2017

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset i, AL

Supplementary Fig. S7.

Seunggwan Shin (3557783)
Keith M. Bayless (3265686)
Shaun L. Winterton (130102)
Torsten Dikow (3255672)
Bryan D. Lessard (5013971)
David K. Yeates (3265707)
Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)

March 2018

Best ML tree with branch support from 100 rapid bootstrap replicates with outgroup Nematocer

RAxML Bootstrap Topology

Siler, Cameron D.
Oaks, Jamie R.
Cobb, Kerry
Ota, Hidetoshi
Brown, Rafe M.

February 2014

Maximum Likelihood Bootstrap topology resulting from ML analyses in the program RAxM

supermatrix_cds_bootstrap_ML

Johnson, Matthew G.
Malley, Claire
Goffinet, Bernard
Jonathan Shaw, A.
Wickett, Norman J.

February 2016

Phylogeny reconstructed from concatenated nucleotide matrix of single genes in RAXML version 8. A si...

Supplementary Fig. S6.

Seunggwan Shin (3557783)
Keith M. Bayless (3265686)
Shaun L. Winterton (130102)
Torsten Dikow (3255672)
Bryan D. Lessard (5013971)
David K. Yeates (3265707)
Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)

March 2018

Best ML tree with branch support from 100 thorough bootstrap replicates for dataset vi, COVERAGE_ROG...

Abstract

Extracted data

TreeRAxML_Ficus

Abstract

Extracted data

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