I have 146 resulting files of HMMsearch. I used 146 Hmm models to generate these files. Could someone share me any script to parse HmmSearch results?
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No script handy but you can code a bit and have BioPerl installed, try using this module
See Synopsis for code snippets. -
And if you prefer Python to Perl, Biopython 1.61 includes a new experimental module SearchIO which includes support for HMMER output (v2 and v3):
Also, if you ask HMMER for the table output you may not even need a complicated parser at all.Comment
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NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification,...10-30-2026, 06:46 AM
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