MassSpec::CUtilities MassSpec::CUtilities is a Perl extension containing C utilities for use in mass spectrometry.
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extension perl mass spectrometry Perl extension C utilities

MassSpec::CUtilities Description

MassSpec::CUtilities is a Perl extension containing C utilities for use in mass spectrometry. MassSpec::CUtilities is a Perl extension containing C utilities for use in mass spectrometry.SYNOPSISMassSpec::CUtilities is an XS module so there's a chance that you or your target user might not get it to install cleanly on the target system; therefore it's recommended to make its presence optional and to offer slower-performing Perl equivalents where practical.Also note that this module uses a 19-letter amino alphabet rather than the traditional 20-letter alphabet, since the isobars Leucine(L) and Isoleucine(I) are represented instead by "X." Furthermore some portions of this module assume that their input peptides are internally in alphabetical order. my $haveCUtilities; if (eval 'require MassSpec::CUtilities') { import MassSpec::CUtilities; $haveCUtilities = 1; } else { $haveCUtilities = 0; } if ($haveCUtilities) { my $candidate = MassSpec::CUtilities::encodeAsBitString("ACCGT"); my @shortPeptides = ("ACT","CCGM","ACCGTY","CCT"); my (@list,@answer); foreach $_ (@shortPeptides) { push @list, MassSpec::CUtilities::encodeAsBitString($_); } if (MassSpec::CUtilities::testManyBitStrings($candidate,@shortPeptides,@list,@answer)) { # should print "ACT" and "CCT" only print "Matched: " . join(',',@answer) . "n"; } }see API documentation for other available subroutinesABSTRACTAn eclectic mix of C utilities originally used in a mass spectrometry denovo sequencing project at NIH. It includes a fast Huffman decoder suitable (with minor modifications) for use with the CPAN module Algorithm::Huffman, as well as a fast peptide mass calculator and methods for encoding peptides as products of prime numbers or as bitmaps.An eclectic mix of C utilities originally used in a mass spectrometry denovo sequencing project at NIH. It includes a fast Huffman decoder suitable (with minor modifications) for use with the CPAN module Algorithm::Huffman, as well as a fast peptide mass calculator and methods for encoding peptides as products of prime numbers or as bitmaps. Requirements: · Perl

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