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Refactor AdapterCounter #220

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merged 3 commits into from
Dec 17, 2024
Merged

Refactor AdapterCounter #220

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5bb67d9
Refactor AdapterCounter to use simpler datastructures
rhpvorderman Dec 15, 2024
1927740
Use an AVX2 implementation with dynamic dispatch to speedup AdapterCo…
rhpvorderman Dec 16, 2024
dfc8f62
Add AdapterCounter changes to the changelog
rhpvorderman Dec 17, 2024
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4 changes: 4 additions & 0 deletions CHANGELOG.rst
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Expand Up @@ -24,6 +24,10 @@ version 0.13.0-dev
false positives from common human genome repeats. The amount of base pairs
that are sampled from the beginning and end is user settable with an option
to sample everything.
+ The code for the adapter counting was refactored and the vectorized algorithm
was replaced by an AVX2 version that is used when the CPU supports that
instruction set. This is both faster and far less code than the original
implementation.
+ Extended the README with a few usage examples.

version 0.12.0
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