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<h3>
Michael R. Crusoe pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/nanopolish">Debian Med / nanopolish</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/386f3288149b22eb39cd52ddee9f2e6354537593">386f3288</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:16:12Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.11.2</pre>
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<h4>30 changed files:</h4>
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<li class="file-stats">
<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">
.travis.yml
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<li class="file-stats">
<a href="#8221bff394b198ade0113ba9b2b9b5e50b5dc82a">
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DEVELOPERS.md
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<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
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<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
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<li class="file-stats">
<a href="#aded7756cdea7c289134466a0d54da4f26d43abb">
docs/source/conf.py
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<li class="file-stats">
<a href="#f31cdeff186e33cf2b03066772c111ae5218aaec">
docs/source/debug.rst
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<li class="file-stats">
<a href="#2d2c9c258608b174cf4fe4c3a5ad976a13fc99ca">
docs/source/manual.rst
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<li class="file-stats">
<a href="#25a119345b2ab98afec596f84420ea5ab628a3c1">
docs/source/quickstart_call_methylation.rst
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<li class="file-stats">
<a href="#b533e7cbb3f06e3619863bd2a00e4f83882b3c8e">
docs/source/quickstart_polya.rst
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<li class="file-stats">
<a href="#41660adec78594f229c01b0235788ce15e4799e4">
scripts/calculate_methylation_frequency.py
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<li class="file-stats">
<a href="#a179b8d0065d58637970381d3ea01facee70712c">
scripts/convert_all_models.py
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<li class="file-stats">
<a href="#084630baf4266f8ce63a4a492bf554e363d10a3a">
scripts/convert_model_to_header.py
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<li class="file-stats">
<a href="#b82970d590c4f6776248edd4f094f8d23e60f797">
scripts/extract_reads_aligned_to_region.py
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<li class="file-stats">
<a href="#a354eabac401b7f4ebb3a6bff8bfceafc31d80d9">
scripts/nanopolish_makerange.py
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<li class="file-stats">
<a href="#dae6e97a9a46a6a65d45ce6275cc6e9424e0077f">
scripts/nanopolish_merge.py
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<li class="file-stats">
<a href="#accc6e1bf582ffda3d446f39c6d88187711ded9a">
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+
scripts/polya_training/dump_signal.py
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<li class="file-stats">
<a href="#d52816e92d02b72f584b4eccaa295ad74871cf3b">
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scripts/polya_training/environment.yml
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<li class="file-stats">
<a href="#d20492b3a0e27e63052ed471166cee57a40c5cb9">
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scripts/polya_training/hmmplot.py
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<li class="file-stats">
<a href="#a533feab8d3540e053620be917dd5fbf533458b2">
<span class="new-file">
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scripts/polya_training/retrain_emission.py
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<li class="file-stats">
<a href="#08a3f970161da42e1852297858a39ca5c3e4d485">
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scripts/polya_training/workflow.md
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<li class="file-stats">
<a href="#30f30a527501f95bc409aa2919835ea54b6e1bba">
scripts/reestimate_polya_emissions.py
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<li class="file-stats">
<a href="#64bd4890dcb435b7eb59baa3df18cff64a3668b1">
src/alignment/nanopolish_alignment_db.cpp
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<li class="file-stats">
<a href="#58a43c64ead5187f569b28ec5ca98b313c48d7c7">
src/common/nanopolish_common.h
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<li class="file-stats">
<a href="#125985123a25635dc9e1a81a7b2849a0f12aa286">
src/nanopolish_call_methylation.cpp
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<li class="file-stats">
<a href="#8a0296d2996ee7f7e9f9e1e26227edce94fe1d66">
src/nanopolish_call_variants.cpp
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<li class="file-stats">
<a href="#e89153eaae499af626816d300b0859df482aba88">
src/nanopolish_haplotype.cpp
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<li class="file-stats">
<a href="#2d62e059707d17d6d88d86a4af4fce9c4c482e3d">
src/nanopolish_index.cpp
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<li class="file-stats">
<a href="#a9c87dc87f669219ca843a7b27aba683ef12b563">
src/nanopolish_raw_loader.cpp
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</li>
<li class="file-stats">
<a href="#7c87ffe15195ab460f3be130ef4d8324408853f0">
src/nanopolish_read_db.cpp
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<li class="file-stats">
<a href="#8a4594db09bdbd5859ea2b82ef08bae7e6cb4eba">
src/nanopolish_vcf2fasta.cpp
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<h5>The diff was not included because it is too large.</h5>
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