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lines changed Original file line number Diff line number Diff line change @@ -71,6 +71,7 @@ Most of our tools work years after their initial publications and are often well
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* [ minimap2] [ sw-minimap2 ] : widely used long-read aligner, published in [ Li (2018)] [ pub-minimap2a ] and improved in [ Li (2021)] [ pub-minimap2b ]
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<img style =" margin : 0px " src =" https://img.shields.io/github/stars/lh3/minimap2 " />
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<a href =" https://bioconda.github.io/recipes/minimap2/README.html " ><img style =" margin : 0px " src =" https://img.shields.io/conda/dn/bioconda/minimap2.svg?style=flag&label=Bioconda " /></a >
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+ <a href =" https://bioconda.github.io/recipes/mappy/README.html " ><img style =" margin : 0px " src =" https://img.shields.io/conda/dn/bioconda/minimap2.svg?style=flag&label=mappy " /></a >
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* [ miniasm] [ sw-miniasm ] : a simple long-read assembler, published in [ Li (2016)] [ pub-miniasm ] .
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Useful for assembly at small scale; not recommended for production.
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<img style =" margin : 0px " src =" https://img.shields.io/github/stars/lh3/miniasm " />
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Maintained by Sanger since 2013.
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<img style =" margin : 0px " src =" https://img.shields.io/github/stars/samtools/samtools " />
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<a href =" https://bioconda.github.io/recipes/samtools/README.html " ><img style =" margin : 0px " src =" https://img.shields.io/conda/dn/bioconda/samtools.svg?style=flag&label=Bioconda " /></a >
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+ <a href =" https://bioconda.github.io/recipes/bcftools/README.html " ><img style =" margin : 0px " src =" https://img.shields.io/conda/dn/bioconda/samtools.svg?style=flag&label=bcftools " /></a >
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+ <a href =" https://bioconda.github.io/recipes/htslib/README.html " ><img style =" margin : 0px " src =" https://img.shields.io/conda/dn/bioconda/samtools.svg?style=flag&label=htslib " /></a >
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* [ TreeBeST] [ sw-treebest ] : the core engine behind TreeFam for tree building.
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Some components are described in [ PI's thesis] [ pub-thesis ] .
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Maintained by Ensembl Compara.
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