<commit_before>﻿namespace BioFSharp.BioTools

// adaped from the hmmer usage guide at http://eddylab.org/software/hmmer/Userguide.pdf
// HMMER: biosequence analysis using profile hidden Markov models (http://hmmer.org/)

///HMMER - Biological sequence analysis using profile hidden Markov models
///Functions providing an API for the HMMER 3 biocontainer
module HMMER =

    open BioContainer

    //Common parameter types for multiple CLI tools
    type AlphabetType =
        ///input alignment is protein sequence data
        | AminoAcids
        ///input alignment is DNA sequence data
        | DNA
        ///input alignment is RNA sequence data
        | RNA

        static member make = function
            | AminoAcids->  ["--amino"]
            | DNA       ->  ["--dna"]
            | RNA       ->  ["--rna"]<commit_msg>fix typo in hmmer comment<commit_after>﻿namespace BioFSharp.BioTools

// adapted from the hmmer usage guide at http://eddylab.org/software/hmmer/Userguide.pdf
// HMMER: biosequence analysis using profile hidden Markov models (http://hmmer.org/)
// HMMER source code is available on github under The 3-Clause BSD License: https://github.com/EddyRivasLab/hmmer/blob/master/LICENSE

///HMMER - Biological sequence analysis using profile hidden Markov models (http://hmmer.org/)
///Functions providing an API for the HMMER 3 biocontainer
module HMMER =

    open BioContainer

    //Common parameter types for multiple CLI tools
    type AlphabetType =
        ///input alignment is protein sequence data
        | AminoAcids
        ///input alignment is DNA sequence data
        | DNA
        ///input alignment is RNA sequence data
        | RNA

        static member make = function
            | AminoAcids->  ["--amino"]
            | DNA       ->  ["--dna"]
            | RNA       ->  ["--rna"]
{'fraction_non_alphanumeric': 0.09383524277141299, 'fraction_numerical': 0.0016366612111292963, 'mean_word_length': 2.2926391382405744, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 9, 'https://': 1, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '4017323', 'n_tokens_mistral': 526, 'n_tokens_neox': 491, 'n_words': 179}