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Remove or add back non-covered sites from compressed counts files #190

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merged 8 commits into from
Nov 29, 2023

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andrewdavidsmith
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  • Adding the covered command to filter counts files for only covered sites. This is needed because rezipping using the bgzf api somehow gets better compression than defaults for gzip
  • smithlab_cpp: udpating submodule
  • recovered.cpp: adding the recovered.cpp file for adding the missing sites back to the file
  • Makefile.am: adding the recovered.cpp file for the recovered command
  • dnmtools.cpp: adding the recovered command
  • recovered.cpp: removing an unused variable to silence warnings

@andrewdavidsmith andrewdavidsmith merged commit c274805 into master Nov 29, 2023
@andrewdavidsmith andrewdavidsmith deleted the temporary-rezip-counts branch November 29, 2023 22:34
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