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PhylTree pipeline

Information about the pipeline:

The "Pipeline for the phylogenetic analysis of protein family sequences".

• 1. Multiple alignment of the amino acid sequences using ALN_COMP
• 2. Evolutionary distance matrix calculation.
• 3. Phylogenetic tree reconstruction using TREE_COMP.

How to use:

To input the data, copy them to the clipboard and paste into the text input field. To do so, press the Ctrl-Ins or Ctrl-V key combination. After loading the data into field, to launch the program, press the "Submit" button with the mouse. The server will accept a file as a computational task. To launch the control example, move to the "Help" link.

The results window appear at the right panel after the program is completed. This page contains links for displaying the calculated results. Each link helps to move to the results page for a particular pipeline. In turn, each pipeline is implemented by subprograms of a subsystem. Therefore, visualization of the implementation of a single pipeline step means visualization of the work of single programs. For the data input to launch the pipeline to appear, press the "Input data" link. For the protein sequence alignment to show up, press the "Multiple protein sequence alignment" link. For the gapless protein sequence alignment to appear, the user presses the "Gapless protein sequence alignment" link. For the pairwise evolutionary distance matrix to appear, the user presses "Evolutionary distance matrix" link. To visualize the built phylogenetic tree, press "Phylogenetic tree" link. Clicking the "Phylogenetic tree in graphics" bring up a new browser window with phylogenetic tree in graphical representation. Pressing to the "Return to the program" link will return the user can go back to the start page.

Input data:

Protein or DNA sequences in FASTA format.

Output data:

Gapped and gapless multiple sequence alignments
Evolutionary distance matrix.
Phylogenetic tree.