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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/pycoqc">Debian Med / pycoqc</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycoqc/-/commit/dcbdc33947dac0ada389e9a97179fcf47bed8126">dcbdc339</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-22T12:05:25+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Spelling
</pre>
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<h4>2 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#16c57e9357794082d68cde8bfb1dbef11f3c273f">
debian/Barcode_split.1
</a>
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<li class="file-stats">
<a href="#b88c83fb443c26c9d122a346b303f479e19307b2">
debian/pycoQC.1
</a>
</li>
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<h4>Changes:</h4>
<li id="16c57e9357794082d68cde8bfb1dbef11f3c273f">
<a href="https://salsa.debian.org/med-team/pycoqc/-/commit/dcbdc33947dac0ada389e9a97179fcf47bed8126#16c57e9357794082d68cde8bfb1dbef11f3c273f"><strong>debian/Barcode_split.1</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="39" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="39" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -39,7 +39,7 @@ current dir</td>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext">.TP</span>
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<td class="diff-line-num old_line" data-linenumber="40" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext">\fB\-\-output_unclassified\fR, \fB\-u\fR</span>
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<td class="diff-line-num old_line" data-linenumber="41" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="41" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext">If given, unclassified barcodes are also written in a</span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="plaintext">file. By default they are skiped</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext">file. By default they are skip<span class="idiff left right">p</span>ed</span>
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<td class="diff-line-num old_line" data-linenumber="43" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext">.TP</span>
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<td class="diff-line-num old_line" data-linenumber="44" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext">\fB\-\-min_barcode_percent\fR MIN_BARCODE_PERCENT, \fB\-p\fR MIN_BARCODE_PERCENT</span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext">Minimal percent of total reads to retain barcode</span>
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<br>
</li>
<li id="b88c83fb443c26c9d122a346b303f479e19307b2">
<a href="https://salsa.debian.org/med-team/pycoqc/-/commit/dcbdc33947dac0ada389e9a97179fcf47bed8126#b88c83fb443c26c9d122a346b303f479e19307b2"><strong>debian/pycoQC.1</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="88" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="88" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -88,7 +88,7 @@ basecaller are removed (default: False)</td>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="plaintext">.TP</span>
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<td class="diff-line-num old_line" data-linenumber="89" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="plaintext">\fB\-\-filter_duplicated\fR</span>
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<td class="diff-line-num old_line" data-linenumber="90" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="plaintext">If given, duplicated read_ids are removed but the</span>
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="plaintext">first occurence is kept (Guppy sometimes outputs the</span>
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="plaintext">first occur<span class="idiff left right">r</span>ence is kept (Guppy sometimes outputs the</span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="plaintext">same read multiple times) (default: False)</span>
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<td class="diff-line-num old_line" data-linenumber="93" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="plaintext">.TP</span>
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<td class="diff-line-num old_line" data-linenumber="94" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="plaintext">\fB\-\-min_barcode_percent\fR MIN_BARCODE_PERCENT</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="116" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="116" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -116,7 +116,7 @@ function (default: )")</td>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="plaintext">.TP</span>
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<pre style="margin: 0;"> <span id="LC117" class="line" lang="plaintext">\fB\-\-sample\fR SAMPLE</span>
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<td class="diff-line-num old_line" data-linenumber="118" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="118" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="plaintext">If not None a n number of reads will be randomly</span>
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<pre style="margin: 0;">-<span id="LC119" class="line" lang="plaintext">selected instead of the entire dataset for ploting</span>
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="plaintext">selected instead of the entire dataset for plot<span class="idiff left right">t</span>ing</span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="plaintext">function (deterministic sampling) (default: 100000)</span>
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="plaintext">.TP</span>
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<pre style="margin: 0;"> <span id="LC122" class="line" lang="plaintext">\fB\-\-default_config\fR, \fB\-d\fR</span>
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