python astropapua --help╭───────────────────────────────────────────────────────────────────────────────────────────╮
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╰─────────────────────────────────────────────────────────────────────────── haumea (v0.9) ─╯
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| HUBBLE |
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| STARGAZER |
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| ''' Convert GBK to protein FASTA file ''' ▄██▄ |
| def gbk_to_faa( ▄██████▄ |
| pathIN: str, pathOUT: str, split: bool = False, ext: str = .gbk) ███▄██▄███ |
| ''' Convert GBK to gene FASTA file ''' ▄▀▄▄▀▄ |
| def gbk_to_ffn( ▀ ▀ ▀ ▀ |
| pathIN: str, pathOUT: str, split: bool = False, ext: str = .gbk) |
| ''' Convert GBK to nucleic FASTA file ''' ▄██▄ |
| def gbk_to_fna( ▄██████▄ |
| pathIN: str, pathOUT: str, split: bool = False, ext: str = .gbk) ███▄██▄███ |
| ''' Convert GBK to GFF file ''' ▄▀▄▄▀▄ |
| def gbk_to_gff( ▀ ▀ ▀ ▀ |
| pathIN: str, pathOUT: str, split: bool = False, ext: str = .gbk) |
| ''' Parse FASTA file and create a dictionnary ''' ▄██▄ |
| def make_fasta_dict( ▄██████▄ |
| pathIN: str, unique: bool = False, pathJSON: str = ) ███▄██▄███ |
| ''' Parse GBK files and create a dictionnary ''' ▄▀▄▄▀▄ |
| def make_gbk_dict( ▀ ▀ ▀ ▀ |
| pathIN: str, pathJSON: str = , sort: bool = True, |
| boolPseudo: bool = False) ▄▄████▄▄ |
| ''' Make a GBK from FASTA files ''' ██████████ |
| def make_gbk_from_fasta( ██▄▄██▄▄██ |
| pathIN: str, pathOUT: str, topology: str, division: str, ▄▀▄▀▀▄▀▄ |
| taxID: int = 0, extList: str = fna,ffn,faa,trnascanse) ▀ ▀ |
| ''' Parse GFF file and create a dictionnary ''' |
| def make_gff_dict( ▀▄ ▄▀ |
| pathIN: str, pathJSON: str = , ext: str = .gff) ▄█▀███▀█▄ |
| ''' Search terms in FASTA ''' █▀███████▀█ |
| def search_in_fasta( █ █▀▀▀▀▀█ █ |
| pathIN: str, search: str, pathOUT: str, unique: bool = False, ▀▀ ▀▀ |
| ext: str = .faa) |
| ''' Slice a GBK file using 2 genes interval ''' ▄██▄ |
| def slice_genes_gbk( ▄██████▄ |
| pathIN: str, pathOUT: str, lt1: str, lt2: str) ███▄██▄███ |
| ''' Unwrap FASTA ''' ▄▀▄▄▀▄ |
| def unwrap_fasta( ▀ ▀ ▀ ▀ |
| pathIN: str, ext: str = .fna) |
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