from pybioinformatic.bed import Bed
from pybioinformatic.blast import Blast
from pybioinformatic.RNA_seq import parse_sample_info, MergeSamples, SpecificStrandRNASeqAnalyser
from pybioinformatic.decompressing_file import ungz
from pybioinformatic.fasta import Fasta
from pybioinformatic.fastq import Fastq
from pybioinformatic.genotype import GenoType
from pybioinformatic.gff import Gff
from pybioinformatic.gtf import Gtf
from pybioinformatic.sequence import Sequence, Nucleotide, Protein, Reads
from pybioinformatic.show_info import Displayer
from pybioinformatic.timer import Timer
from pybioinformatic.task_manager import TaskManager
from pybioinformatic.vcf import VCF
from pybioinformatic.util import FuncDict
from pybioinformatic.biomatplotlib import generate_unique_colors
from pybioinformatic.biopandas import (
    display_set,
    read_file_as_dataframe_from_stdin,
    read_in_gene_expression_as_dataframe,
    merge_duplicate_indexes,
    filter_by_min_value,
    get_FPKM,
    get_TPM,
    dfs_to_excel,
    dataframe_to_str,
    interval_stat
)

__version__ = '0.0.4'
__all__ = [
    'Bed',
    'Blast',
    'parse_sample_info',
    'MergeSamples',
    'SpecificStrandRNASeqAnalyser',
    'ungz',
    'Fasta',
    'Fastq',
    'GenoType',
    'Gff',
    'Gtf',
    'Sequence',
    'Nucleotide',
    'Protein',
    'Reads',
    'Displayer',
    'Timer',
    'TaskManager',
    'VCF',
    'FuncDict',
    'display_set',
    'read_file_as_dataframe_from_stdin',
    'read_in_gene_expression_as_dataframe',
    'merge_duplicate_indexes',
    'filter_by_min_value',
    'get_TPM',
    'get_FPKM',
    'dfs_to_excel',
    'dataframe_to_str',
    'interval_stat',
    'generate_unique_colors'
]
