compress counts#200

Merged

andrewdavidsmith merged 13 commits intomasterfrom compress-counts

Dec 8, 2023

+746-54

Commits on Dec 7, 2023

methcounts.cpp: adding option to include a header in the counts output
andrewdavidsmith
committed
covered.cpp: minor fix in output when no args given
andrewdavidsmith
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symmetric-cpgs.cpp: added a function to print any header if it exists, which involves just printing leading lines that begin with # symbol
andrewdavidsmith
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bam_record_utils.hpp: added a function to get the target length from the header without specifying the internal header inside the bam_header object
andrewdavidsmith
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MSite.hpp and MSite.cpp: added a constructor from a char array with length. Also moved the logic of parsing strings to construct MSite into an initialize function which allows the same thing to be …
andrewdavidsmith
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xcounts.cpp: adding this file to compress the counts files as small as possible
andrewdavidsmith
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dnmtools.cpp: adding the xcounts command
andrewdavidsmith
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Makefile.am: adding the xcounts.cpp file to the sources
andrewdavidsmith
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unxcounts.cpp: adding a tool to convert back from the xcounts format
andrewdavidsmith
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Makefile.am and dnmtools.cpp: adding the unxcounts command
andrewdavidsmith
committed

Commits on Dec 8, 2023