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Pairwise ortholog matrix of cg.ezbiocloud.net

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Jon Jongsik Chun
Jon Jongsik Chun

This document provides instructions for exploring a pairwise ortholog matrix between genomes. It explains how to set the reference genome, ortholog detection method, and display options for the cells. Changing parameters requires clicking an apply button to update the table with the new settings.

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B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 1 Set the Reference genome here. Orthologs are displayed in the direction of Reference Subject genome. In this case, Reference genome is the second column. How to explore pairwise ortholog matrix 1 1
B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 2 Set the Reference genome here. Orthologs are displayed in the direction of Reference Subject genome. In this case, Reference genome is the second column. Set the Data Type or algorithm for ortholog detection. RBH (Reciprocal Best Hit) is protein-based whereas ORF-independent is DNA-based. How to explore pairwise ortholog matrix 1 2 1 2
B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 3 Set the display option in cells. Contig# begin displays the index (starting from 1) of contigs of the genome and their begin-positions. Bit score ratio (%) displays how similar the sequences are between Reference and Subject genomes. 3 3 How to explore pairwise ortholog matrix
B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 4 Set the display option in cells. Contig# begin displays the index (starting from 1) of contigs of the genome and their begin-positions. Bit score ratio (%) displays how similar the sequences are between Reference and Subject genomes. Click [Apply] button for applying parameters. The content of table will remain unchanged until this button is clicked. 3 4 3 4 How to explore pairwise ortholog matrix

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Pairwise ortholog matrix of cg.ezbiocloud.net

  • 1. B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 1 Set the Reference genome here. Orthologs are displayed in the direction of Reference Subject genome. In this case, Reference genome is the second column. How to explore pairwise ortholog matrix 1 1
  • 2. B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 2 Set the Reference genome here. Orthologs are displayed in the direction of Reference Subject genome. In this case, Reference genome is the second column. Set the Data Type or algorithm for ortholog detection. RBH (Reciprocal Best Hit) is protein-based whereas ORF-independent is DNA-based. How to explore pairwise ortholog matrix 1 2 1 2
  • 3. B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 3 Set the display option in cells. Contig# begin displays the index (starting from 1) of contigs of the genome and their begin-positions. Bit score ratio (%) displays how similar the sequences are between Reference and Subject genomes. 3 3 How to explore pairwise ortholog matrix
  • 4. B I O I N F O R M A T I C S M A D E E A S Y / C h u n L a b , I n c . 4 Set the display option in cells. Contig# begin displays the index (starting from 1) of contigs of the genome and their begin-positions. Bit score ratio (%) displays how similar the sequences are between Reference and Subject genomes. Click [Apply] button for applying parameters. The content of table will remain unchanged until this button is clicked. 3 4 3 4 How to explore pairwise ortholog matrix