TreeBASE Search-Analyses for study 18104

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Analyses for Study 18104

Citation title: "Lulworthia atlantica: a new species supported by molecular phylogeny and morphological analysis".

Study name: "Lulworthia atlantica: a new species supported by molecular phylogeny and morphological analysis".

This study is part of submission 18104 (Status: Published).

Analyses

Analysis 1

Analysis details

Name

Input data

1 Input object(s)

Analysis step

Bayesian tree of ITS-LSU rRNA regions --

Step details

Name

Software used

Name
Version
Algorithm
Commands
Markov chain Monte Carlo (mcmc); GTR model (nst = 6); gamma-distributed rate variation across sites and a proportion of invariable sites (rates = invgamma); the analysis was initiated using a random tree from the dataset with four chains running simultaneously for 20 x 107 generations; sampling every 100 generations. The first 25 % trees were discarded (burn-in) and a majority rule consensus tree was generated from the remaining trees.

Output data

1 Output object(s)

Analysis 2

Analysis details

Name

Input data

1 Input object(s)

Analysis step

Bayesian tree of concatenated SSU/LSU rRNA subunits --

Step details

Name

Software used

Name
Version
Algorithm
Commands
Markov chain Monte Carlo (mcmc); GTR model (nst = 6); gamma-distributed rate variation across sites and a proportion of invariable sites (rates = invgamma); the analysis was initiated using a random tree from the dataset with four chains running simultaneously for 20 x 107 generations; sampling every 100 generations. The first 25 % trees were discarded (burn-in) and a majority rule consensus tree was generated from the remaining trees.

Output data

1 Output object(s)

Analysis 3

Analysis details

Name

Input data

1 Input object(s)

Analysis step

Bayesian tree of ITS rRNA region --

Step details

Name

Software used

Name
Version
Algorithm
Commands
Markov chain Monte Carlo (mcmc); GTR model (nst = 6); gamma-distributed rate variation across sites and a proportion of invariable sites (rates = invgamma); the analysis was initiated using a random tree from the dataset with four chains running simultaneously for 20 x 107 generations; sampling every 100 generations. The first 25 % trees were discarded (burn-in) and a majority rule consensus tree was generated from the remaining trees.

Output data

1 Output object(s)

Analysis 4

Analysis details

Name

Input data

1 Input object(s)

Analysis step

Bayesian tree of LSU rRNA subunit --

Step details

Name

Software used

Name
Version
Algorithm
Commands
Markov chain Monte Carlo (mcmc); GTR model (nst = 6); gamma-distributed rate variation across sites and a proportion of invariable sites (rates = invgamma); the analysis was initiated using a random tree from the dataset with four chains running simultaneously for 20 x 107 generations; sampling every 100 generations. The first 25 % trees were discarded (burn-in) and a majority rule consensus tree was generated from the remaining trees.

Output data