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|
try:
from importlib.metadata import PackageNotFoundError, version
except ImportError:
from importlib_metadata import PackageNotFoundError, version
try:
__version__ = version("bioframe")
except PackageNotFoundError:
__version__ = "unknown"
__all__ = [
"arrops",
"from_any",
"from_dict",
"from_list",
"from_series",
"is_bedframe",
"is_cataloged",
"is_chrom_dtype",
"is_complete_ucsc_string",
"is_contained",
"is_covering",
"is_overlapping",
"is_sorted",
"is_tiling",
"is_viewframe",
"make_viewframe",
"parse_region",
"parse_region_string",
"sanitize_bedframe",
"to_ucsc_string",
"update_default_colnames",
"binnify",
"digest",
"frac_gc",
"frac_gene_coverage",
"frac_mapped",
"make_chromarms",
"pair_by_distance",
"seq_gc",
"SCHEMAS",
"UCSCClient",
"assemblies_available",
"assembly_info",
"fetch_centromeres",
"fetch_chromsizes",
"load_fasta",
"read_alignments",
"read_bam",
"read_bigbed",
"read_bigwig",
"read_chromsizes",
"read_pairix",
"read_tabix",
"read_table",
"to_bed",
"to_bigbed",
"to_bigwig",
"assign_view",
"closest",
"cluster",
"complement",
"count_overlaps",
"coverage",
"expand",
"merge",
"overlap",
"mark_runs",
"merge_runs",
"select",
"select_indices",
"select_labels",
"select_mask",
"setdiff",
"sort_bedframe",
"subtract",
"trim",
"plot_intervals",
"to_ucsc_colorstring",
]
from .core import (
arrops,
from_any,
from_dict,
from_list,
from_series,
is_bedframe,
is_cataloged,
is_chrom_dtype,
is_complete_ucsc_string,
is_contained,
is_covering,
is_overlapping,
is_sorted,
is_tiling,
is_viewframe,
make_viewframe,
parse_region,
parse_region_string,
sanitize_bedframe,
to_ucsc_string,
update_default_colnames,
)
from .extras import (
binnify,
digest,
frac_gc,
frac_gene_coverage,
frac_mapped,
make_chromarms,
mark_runs,
merge_runs,
pair_by_distance,
seq_gc,
)
from .io import (
SCHEMAS,
UCSCClient,
assemblies_available,
assembly_info,
fetch_centromeres,
fetch_chromsizes,
load_fasta,
read_alignments,
read_bam,
read_bigbed,
read_bigwig,
read_chromsizes,
read_pairix,
read_tabix,
read_table,
to_bed,
to_bigbed,
to_bigwig,
)
from .ops import (
assign_view,
closest,
cluster,
complement,
count_overlaps,
coverage,
expand,
merge,
overlap,
select,
select_indices,
select_labels,
select_mask,
setdiff,
sort_bedframe,
subtract,
trim,
)
from .vis import plot_intervals, to_ucsc_colorstring
del version, PackageNotFoundError
|
