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alignment assembly comparison bloom filters clustering de novo assembly hpc make meta programming sequence analysis sequencing software static typesRecent posts
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Constructing An Assembly Evaluation Pipeline
- April, 2012
de novo assembly, make, assembly comparisonOften, genome assemblies report metrics like N50 or number of contigs, but this says very little about the assembly accuracy or usefulness. The asmeval pipeline is an attempt at a more comprehensive approach, and makes it easier to compare assemblies on a broader set of parameters. It is still in development, so please contact me if you want to test it.
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The type system, safety, sequence alignments, and you
- April, 2011
alignment, static types, programmingAn simple example that illustrates how to leverage the type system to reduce the possibility of errors. By making our types more polymorphic (or less specific), we restrict the possible implementations.
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My blog software
- March, 2012
metaBy popular demand: A handful of updates and tweaks to Hakyll.
Comments? Please email ketil@malde.org.
