Please first download and install the binary for your platform. IQ-TREE takes as input binary option introduction multiple sequence alignment and will reconstruct an evolutionary tree that is best explained by the input data.
The input alignment can be in various common formats. From the download there is an example alignment called example. Bird form a separate sister clade. Here the tree is drawn at the outgroup Lungfish which is more accient than other species in this example. This prevents output files being overwritten when you perform multiple analyses on the same alignment within the same folder. NOTE: If you use model selection please cite the following paper:S.
IQ-TREE supports a number of codon models. 6 we provide a new option -bnni to reduce the risk of overestimating branch supports with UFBoot due to severe model violations. The standard nonparametric bootstrap is invoked by the -b option:iqtree -s example. G -b 100 -b specifies the number of bootstrap replicates where 100 is the minimum recommended number. The output files are similar to those produced by the UFBoot procedure. To perform this test, run:iqtree -s example.
G -alrt 1000 -alrt specifies the number of bootstrap replicates for SH-aLRT where 1000 is the minimum number recommended. Other branches appear to be well supported. IQ-TREE can utilize multiple CPU cores to speed up the analysis. A complement option -nt allows specifying the number of CPU cores to use.
Note that for old IQ-TREE versions iqtree to iqtree-omp for all commands below. G -nt 2 Here, IQ-TREE will use 2 CPU cores to perform the analysis. A good start when programming efficiently is to know how much memory different data types and operations require. It is implementation-dependent how much memory the Erlang data types and other items consume, but the following table shows some figures for the erts-8. The unit of measurement is memory words. There exists both a 32-bit and a 64-bit implementation. A word is therefore 4 bytes or 8 bytes, respectively.
An atom refers into an atom table, which also consumes memory. The atom text is stored once for each unique atom in this table. The atom table is not garbage-collected. 8 due to the probabilistic nature of the internal HAMT data structure. 5 words for a process identifier from another node. A process identifier refers into a process table and a node table, which also consumes memory. 5 words for a port identifier from another node.
A port identifier refers into a port table and a node table, which also consumes memory. 7 words for a reference from another node. 6 words for a reference from another node. A reference refers into a node table, which also consumes memory. A fun refers into a fun table, which also consumes memory. 338 words when spawned, including a heap of 233 words.
The Erlang language specification puts no limits on the number of processes, length of atoms, and so on. However, for performance and memory saving reasons, there will always be limits in a practical implementation of the Erlang language and execution environment. The maximum number of simultaneously alive Erlang processes is by default 262,144. This limit can be configured at startup.
Y on X, or if X and Y are connected. All data concerning remote nodes, except for the node name atom, are garbage-collected. By default, the maximum number of atoms is 1,048,576. In the 32-bit implementation of Erlang, 536,870,911 bytes is the largest binary that can be constructed or matched using the bit syntax.