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Scaffold support for custom organism
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,53 @@ | ||
| {"chrBands": ["1 p p1 1 15617197 1 15617197 gpos50", | ||
| "1 p p1 15617197 17000000 15617197 17000000 acen", | ||
| "1 q q1 17000000 18051616 17000000 18051616 acen", | ||
| "1 q q1 18051616 43270923 18051616 43270923 gpos50", | ||
| "2 p p2 1 12620885 1 12620885 gpos50", | ||
| "2 p p2 12620885 14000000 12620885 14000000 acen", | ||
| "2 q q2 14000000 15480028 14000000 15480028 acen", | ||
| "2 q q2 15480028 35937250 15480028 35937250 gpos50", | ||
| "3 p q3 1 17882716 1 17882716 gpos50", | ||
| "3 p q3 17882716 19000000 17882716 19000000 acen", | ||
| "3 q p3 19000000 20185397 19000000 20185397 acen", | ||
| "3 q p3 20185397 36413819 20185397 36413819 gpos50", | ||
| "4 p p4 1 8234513 1 8234513 gpos50", | ||
| "4 p p4 8234513 9000000 8234513 9000000 acen", | ||
| "4 q q4 9000000 10055794 9000000 10055794 acen", | ||
| "4 q q4 10055794 35502694 10055794 35502694 gpos50", | ||
| "5 p p5 1 11393044 1 11393044 gpos50", | ||
| "5 p p5 11393044 12000000 11393044 12000000 acen", | ||
| "5 q q5 12000000 13487138 12000000 13487138 acen", | ||
| "5 q q5 13487138 29958434 13487138 29958434 gpos50", | ||
| "6 p p6 1 13200682 1 13200682 gpos50", | ||
| "6 p p6 13200682 15000000 13200682 15000000 acen", | ||
| "6 q q6 15000000 17559239 15000000 17559239 acen", | ||
| "6 q q6 17559239 31248787 17559239 31248787 gpos50", | ||
| "7 p p7 1 9103739 1 9103739 gpos50", | ||
| "7 p p7 9103739 11000000 9103739 11000000 acen", | ||
| "7 q q7 11000000 12716723 11000000 12716723 acen", | ||
| "7 q q7 12716723 29697621 12716723 29697621 gpos50", | ||
| "8 p p8 1 11983657 1 11983657 gpos50", | ||
| "8 p p8 11983657 13000000 11983657 13000000 acen", | ||
| "8 q q8 13000000 14416278 13000000 14416278 acen", | ||
| "8 q q8 14416278 28443022 14416278 28443022 gpos50", | ||
| "9 p p9 1 1211963 1 1211963 gpos50", | ||
| "9 p p9 1211963 2000000 1211963 2000000 acen", | ||
| "9 q q9 2000000 3929561 2000000 3929561 acen", | ||
| "9 q q9 3929561 23012720 3929561 23012720 gpos50", | ||
| "10 p p10 1 7639733 1 7639733 gpos50", | ||
| "10 p p10 7639733 8000000 7639733 8000000 acen", | ||
| "10 q q10 8000000 8625675 8000000 8625675 acen", | ||
| "10 q q10 8625675 23207287 8625675 23207287 gpos50", | ||
| "11 p p11 1 11341762 1 11341762 gpos50", | ||
| "11 p p11 11341762 12000000 11341762 12000000 acen", | ||
| "11 q q11 12000000 13043189 12000000 13043189 acen", | ||
| "11 q q11 13043189 29021106 13043189 29021106 gpos50", | ||
| "12 p p12 1 11058522 1 11058522 gpos50", | ||
| "12 p p12 11058522 11600000 11058522 11600000 acen", | ||
| "12 q q12 11600000 12239912 11600000 12239912 acen", | ||
| "12 q q12 12239912 27531856 12239912 27531856 gpos50", | ||
| "13 p p13 1 9058522 1 9058522 gpos50", | ||
| "13 p p13 9058522 11600000 11058522 11600000 acen", | ||
| "13 q q13 11600000 12239912 11600000 12239912 acen", | ||
| "13 q q13 12239912 27531856 12239912 27531856 gpos50"] | ||
| } |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
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| <!DOCTYPE html> | ||
| <html> | ||
| <head> | ||
| <title>Custom organism | Ideogram</title> | ||
| <style> | ||
| body {font: 14px Arial; line-height: 19.6px; padding: 0 15px;} | ||
| a, a:visited {text-decoration: none;} | ||
| a:hover {text-decoration: underline;} | ||
| a, a:hover, a:visited, a:active {color: #0366d6;} | ||
| </style> | ||
| <script type="text/javascript" src="../../dist/js/ideogram.min.js"></script> | ||
| <link rel="icon" type="image/x-icon" href="img/ideogram_favicon.ico"> | ||
| </head> | ||
| <body> | ||
| <h1>Custom organism | Ideogram</h1> | ||
| <a href="../">Overview</a> | | ||
| <a href="multiple-primates">Previous</a> | | ||
| <a href="mouse">Next</a> | | ||
| <a href="https://github.com/eweitz/ideogram/blob/gh-pages/custom.html" target="_blank">Source</a> | ||
| <p> | ||
| A custom genome is depicted below. The grey and black bands in each chromosome | ||
| represent | ||
| <a href="https://en.wikipedia.org/wiki/Heterochromatin">heterochromatin</a>. | ||
| The pink region is the area around the | ||
| <a href="https://en.wikipedia.org/wiki/Centromere">centromere</a>, and the blue represents variable regions. | ||
| </p> | ||
| <p> | ||
| This ideogram shows most chromosomes in a | ||
| <a href="https://en.wikipedia.org/wiki/Ploidy">haploid</a> state for | ||
| simplicity. For more accurate, diploid representation of custom genomes, | ||
| see <a href="ploidy-basic">Ploidy, basic</a> and | ||
| <a href="multiple-trio">Multiple, trio</a>. | ||
| </p> | ||
| <script type="text/javascript"> | ||
|
|
||
| var ideogram = new Ideogram({ | ||
| organism: 'custom' | ||
| }); | ||
| </script> | ||
| </body> | ||
| </html> |