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Sequence validation
Utility functions
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C
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D
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F
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_
__eq__() (fqfa.fastq.fastqread.FastqRead method)
__hash__ (fqfa.fastq.fastqread.FastqRead attribute)
__init__() (fqfa.fastq.fastqread.FastqRead method)
__len__() (fqfa.fastq.fastqread.FastqRead method)
__post_init__() (fqfa.fastq.fastqread.FastqRead method)
__repr__() (fqfa.fastq.fastqread.FastqRead method)
__str__() (fqfa.fastq.fastqread.FastqRead method)
__weakref__ (fqfa.fastq.fastqread.FastqRead attribute)
A
AA_CODES (in module fqfa.constants.iupac.protein)
AA_CODES_ALL (in module fqfa.constants.iupac.protein)
AA_CODES_AMBIGUITY (in module fqfa.constants.iupac.protein)
amino_acids_all_validator() (in module fqfa.validator.validator)
amino_acids_validator() (in module fqfa.validator.validator)
average_quality() (fqfa.fastq.fastqread.FastqRead method)
C
CODON_TABLE (in module fqfa.constants.translation.table)
convert_dna_to_rna() (in module fqfa.util.nucleotide)
convert_rna_to_dna() (in module fqfa.util.nucleotide)
create_validator() (in module fqfa.validator.create)
D
DNA_AMBIGUITY (in module fqfa.constants.iupac.dna)
DNA_BASES (in module fqfa.constants.iupac.dna)
dna_bases_validator() (in module fqfa.validator.validator)
DNA_CHARACTERS (in module fqfa.constants.iupac.dna)
dna_characters_validator() (in module fqfa.validator.validator)
DNA_COMPLEMENTS (in module fqfa.constants.iupac.dna)
F
FastqRead (class in fqfa.fastq.fastqread)
fqfa.constants.iupac.dna
module
fqfa.constants.iupac.protein
module
fqfa.constants.iupac.rna
module
fqfa.constants.translation.table
module
fqfa.fasta.fasta
module
fqfa.fastq.fastq
module
fqfa.fastq.fastqread
module
fqfa.util.file
module
fqfa.util.infer
module
fqfa.util.nucleotide
module
fqfa.util.translate
module
fqfa.validator.create
module
fqfa.validator.validator
module
H
has_fasta_ext() (in module fqfa.util.file)
has_fastq_ext() (in module fqfa.util.file)
header (fqfa.fastq.fastqread.FastqRead attribute)
header2 (fqfa.fastq.fastqread.FastqRead attribute)
I
infer_all_sequence_types() (in module fqfa.util.infer)
infer_sequence_type() (in module fqfa.util.infer)
M
min_quality() (fqfa.fastq.fastqread.FastqRead method)
module
fqfa.constants.iupac.dna
fqfa.constants.iupac.protein
fqfa.constants.iupac.rna
fqfa.constants.translation.table
fqfa.fasta.fasta
fqfa.fastq.fastq
fqfa.fastq.fastqread
fqfa.util.file
fqfa.util.infer
fqfa.util.nucleotide
fqfa.util.translate
fqfa.validator.create
fqfa.validator.validator
N
ncbi_genetic_code_to_dict() (in module fqfa.util.translate)
O
open_compressed() (in module fqfa.util.file)
P
parse_fasta_records() (in module fqfa.fasta.fasta)
parse_fastq_pe_reads() (in module fqfa.fastq.fastq)
parse_fastq_reads() (in module fqfa.fastq.fastq)
Q
quality (fqfa.fastq.fastqread.FastqRead attribute)
quality_encoding_value (fqfa.fastq.fastqread.FastqRead attribute)
R
reverse_complement() (fqfa.fastq.fastqread.FastqRead method)
(in module fqfa.util.nucleotide)
RNA_BASES (in module fqfa.constants.iupac.rna)
rna_bases_validator() (in module fqfa.validator.validator)
S
sequence (fqfa.fastq.fastqread.FastqRead attribute)
T
translate_dna() (in module fqfa.util.translate)
trim() (fqfa.fastq.fastqread.FastqRead method)
trim_length() (fqfa.fastq.fastqread.FastqRead method)
W
write_fasta_record() (in module fqfa.fasta.fasta)
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