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SEGUL

Alignment Partition Conversion

Desktop

SEGUI Convert partition page on a desktop with the tool form and file panelABCDE

Phone

SEGUI Convert partition page on a phone with the tool formABCDE

Convert partition from one format to another.

Steps

Section titled “Steps”
  1. Select Alignments in the navigation bar A.
  2. Open Convert partition from the tool picker B: the tool list on wide windows, or the tool name at the top of the page on phones.
  3. Add the input files C with Browse files, Browse folder, or Open archive. SEGUI searches a folder and its subfolders for files that match the tool's input format. See file input for mobile options.
  4. Select input partition format.
  5. Select Browse under Select output directory to choose the output folder. On phones and tablets, enter a Directory name instead; SEGUI saves it in the app's own folder.
  6. Select output partition format.
  7. Select the run button D, labeled Convert, to start the task.

Partition Format

Section titled “Partition Format”

The app supports input and output partition formats. The input partition format is the format of the partition file you want to convert. The output partition format is the format of the partition file you want to generate. Partition options include:

  • Charset: partition embedded in NEXUS sequence files
  • Nexus: partition file in NEXUS format
  • Raxml: partition file in RAxML format

For DNA sequences, we recommend using the --datatype dna option when converting to RAxML partition format. The partition format will include the datatype as below:

DNA, locus_1 = 1-100
DNA, locus_2 = 101-150
DNA, locus_3 = 151-200

Copyright © 2026 H. Handika & J. A. Esselstyn.

This material is based upon work supported by the National Science Foundation under grant numbers: DEB-1754393 and DEB-2244754. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the National Science Foundation.