ConsDB 1.0 Tool for creating consensus genomes from variant databases.

RSEntry.RSCollection Member List

This is the complete list of members for RSEntry.RSCollection, including all inherited members.

__add__(self, rsc) | RSEntry.RSCollection |
__eq__(self, rsc) | RSEntry.RSCollection |
__getitem__(self, key) | RSEntry.RSCollection |
__iadd__(self, rsc) | RSEntry.RSCollection |
__init__(self) (defined in RSEntry.RSCollection) | RSEntry.RSCollection |
__len__(self) | RSEntry.RSCollection |
__repr__(self) | RSEntry.RSCollection |
__str__(self) | RSEntry.RSCollection |
add_entry(self, e) | RSEntry.RSCollection |
add_entry_from_args(self, chrom, rsid, pos, quiet=False) | RSEntry.RSCollection |
chr_pos_table (defined in RSEntry.RSCollection) | RSEntry.RSCollection |
chrom_to_int(c) | RSEntry.RSCollection | static
dump(self, fn, idx_file, c, rsids=['all'], old_size=0, append=False, chunksize=10000) | RSEntry.RSCollection |
dump_chrs(self, chrs, fp_out, store_all=False, store_maj=False) | RSEntry.RSCollection |
dump_full(self, fn) | RSEntry.RSCollection |
dump_vcf(self, fn, pop=None, cons=False, is_maj=False) | RSEntry.RSCollection |
entries (defined in RSEntry.RSCollection) | RSEntry.RSCollection |
from_1000gp(fn, index_fn, superpop_fn, quiet=False) | RSEntry.RSCollection | static
from_dbsnp(fn, quiet=False) | RSEntry.RSCollection | static
from_gnomad(fn, quiet=False) | RSEntry.RSCollection | static
get_by_chr(self, chrom) | RSEntry.RSCollection |
get_by_chr_pos(self, chrom, pos) | RSEntry.RSCollection |
get_by_rsid(self, rsid) | RSEntry.RSCollection |
get_chrom_from_filename(fn) | RSEntry.RSCollection | static
get_major(self, mut=True) | RSEntry.RSCollection |
load_from_file_by_chr_pos(fn, idx_file, c, pos, chunk_idx_dict=None, ret_chunk=False) | RSEntry.RSCollection | static
load_from_file_by_rsid(fn, idx_file, rsid, chunk_idx_dict=None, ret_chunk=False) | RSEntry.RSCollection | static
load_from_file_full(fn) | RSEntry.RSCollection | static
load_from_file_pops(fn, pops, cons=False) | RSEntry.RSCollection | static
make_chunk_idx_dict(idx_fn, key_fields=[1, 2]) | RSEntry.RSCollection | static
merge_files(fn_list, out_fn, c=None) | RSEntry.RSCollection | static
open(fn) | RSEntry.RSCollection | static
parse_file_line(d) | RSEntry.RSCollection | static
rsid_table (defined in RSEntry.RSCollection) | RSEntry.RSCollection |
sort_rsidx(rsidx) | RSEntry.RSCollection | static
sort_rsidx_line(line_split) | RSEntry.RSCollection | static