http://genome.sph.umich.edu/w/index.php?title=BAM&feed=atom&action=history
BAM - Revision history
2024-03-28T13:49:03Z
Revision history for this page on the wiki
MediaWiki 1.35.9
http://genome.sph.umich.edu/w/index.php?title=BAM&diff=6566&oldid=prev
Mktrost at 03:16, 27 February 2013
2013-02-27T03:16:55Z
<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 03:16, 27 February 2013</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l5" >Line 5:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The corresponding [[SAM Format]] can be used to store sequence data, both aligned as well as unaligned, in a human readable format.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The corresponding [[SAM Format]] can be used to store sequence data, both aligned as well as unaligned, in a human readable format.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>BAM and SAM formats are designed to contain <del class="diffchange diffchange-inline">exactly </del>the same information. The SAM format is more human readable, and easier to process by conventional text based processing programs, such as awk, sed, python, cut and so on. The BAM format provides binary versions of most of the same data, and is designed to compress reasonably well.</div></td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>BAM and SAM formats are designed to contain the same information. The SAM format is more human readable, and easier to process by conventional text based processing programs, such as awk, sed, python, cut and so on. The BAM format provides binary versions of most of the same data, and is designed to compress reasonably well.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Our [[C++ Library: libStatGen|libStatGen]] library reads both SAM and BAM format files.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Our [[C++ Library: libStatGen|libStatGen]] library reads both SAM and BAM format files.</div></td></tr>
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Mktrost
http://genome.sph.umich.edu/w/index.php?title=BAM&diff=3696&oldid=prev
Mktrost: Update link to the library
2011-09-07T13:10:22Z
<p>Update link to the library</p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 13:10, 7 September 2011</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l7" >Line 7:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>BAM and SAM formats are designed to contain exactly the same information. The SAM format is more human readable, and easier to process by conventional text based processing programs, such as awk, sed, python, cut and so on. The BAM format provides binary versions of most of the same data, and is designed to compress reasonably well.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>BAM and SAM formats are designed to contain exactly the same information. The SAM format is more human readable, and easier to process by conventional text based processing programs, such as awk, sed, python, cut and so on. The BAM format provides binary versions of most of the same data, and is designed to compress reasonably well.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Our [[C++ Library: <del class="diffchange diffchange-inline">libbam</del>|<del class="diffchange diffchange-inline">BamFile</del>]] library reads both SAM and BAM format files.</div></td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Our [[C++ Library: <ins class="diffchange diffchange-inline">libStatGen</ins>|<ins class="diffchange diffchange-inline">libStatGen</ins>]] library reads both SAM and BAM format files.</div></td></tr>
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Mktrost
http://genome.sph.umich.edu/w/index.php?title=BAM&diff=1878&oldid=prev
Pha: elaborate on details
2010-07-30T17:28:27Z
<p>elaborate on details</p>
<table class="diff diff-contentalign-left diff-editfont-monospace" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 17:28, 30 July 2010</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td>
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<tr><td class='diff-marker'>−</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>The '''BAM Format''' is a binary format for storing <del class="diffchange diffchange-inline">aligned reads</del>. </div></td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>The '''BAM Format''' is a binary format for storing <ins class="diffchange diffchange-inline">sequence data</ins>. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The current definition of the format is at [[http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification]].</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The current definition of the format is at [[http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification]].</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">A sister </del>[[SAM Format]] can be used to store aligned <del class="diffchange diffchange-inline">reads </del>in a text <del class="diffchange diffchange-inline">file</del>.</div></td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">The corresponding </ins>[[SAM Format]] can be used to store <ins class="diffchange diffchange-inline">sequence data, both </ins>aligned <ins class="diffchange diffchange-inline">as well as unaligned, </ins>in a <ins class="diffchange diffchange-inline">human readable format.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">BAM and SAM formats are designed to contain exactly the same information. The SAM format is more human readable, and easier to process by conventional </ins>text <ins class="diffchange diffchange-inline">based processing programs, such as awk, sed, python, cut and so on. The BAM format provides binary versions of most of the same data, and is designed to compress reasonably well.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">Our [[C++ Library: libbam|BamFile]] library reads both SAM and BAM format files</ins>.</div></td></tr>
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Pha
http://genome.sph.umich.edu/w/index.php?title=BAM&diff=1529&oldid=prev
Goncalo: moved BAM Format to BAM
2010-06-01T04:47:24Z
<p>moved <a href="/wiki/BAM_Format" class="mw-redirect" title="BAM Format">BAM Format</a> to <a href="/wiki/BAM" title="BAM">BAM</a></p>
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<td colspan="1" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 04:47, 1 June 2010</td>
</tr><tr><td colspan="2" class="diff-notice" lang="en"><div class="mw-diff-empty">(No difference)</div>
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Goncalo
http://genome.sph.umich.edu/w/index.php?title=BAM&diff=219&oldid=prev
Goncalo at 06:51, 19 December 2009
2009-12-19T06:51:32Z
<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 06:51, 19 December 2009</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The current definition of the format is at [[http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification]].</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The current definition of the format is at [[http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification]].</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">A sister [[SAM Format]] can be used to store aligned reads in a text file.</ins></div></td></tr>
</table>
Goncalo
http://genome.sph.umich.edu/w/index.php?title=BAM&diff=206&oldid=prev
Goncalo: Created page with 'The '''BAM Format''' is a binary format for storing aligned reads. The current definition of the format is at http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification…'
2009-12-14T18:38:03Z
<p>Created page with 'The '''BAM Format''' is a binary format for storing aligned reads. The current definition of the format is at <a href="/w/index.php?title=Http://samtools.sourceforge.net/SAM1.pdf_BAM/SAM_Specification&action=edit&redlink=1" class="new" title="Http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification (page does not exist)">http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification</a>…'</p>
<p><b>New page</b></p><div>The '''BAM Format''' is a binary format for storing aligned reads. <br />
<br />
The current definition of the format is at [[http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification]].</div>
Goncalo