Index
_
|
A
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
J
|
K
|
L
|
M
|
N
|
O
|
P
|
R
|
S
|
T
|
U
|
V
|
W
_
__array_ufunc__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__enter__() (pyranges.multithreaded.suppress_stdout_stderr method)
__exit__() (pyranges.multithreaded.suppress_stdout_stderr method)
__getattr__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__getitem__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__getstate__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__iter__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__len__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__repr__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__setattr__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__setstate__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__str__() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
__version__ (in module pyranges.version)
_fetch_gene_transcript_exon_id() (in module pyranges.readers)
_lengths() (in module pyranges.multithreaded)
_slack() (in module pyranges.multithreaded)
_tes() (in module pyranges.multithreaded)
_tss() (in module pyranges.multithreaded)
A
aorta() (in module pyranges.data)
aorta2() (in module pyranges.data)
apply() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
apply_chunks() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
apply_pair() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
as_df() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
assign() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
C
call_f() (in module pyranges.multithreaded)
call_f_single() (in module pyranges.multithreaded)
chipseq() (in module pyranges.data)
chipseq_background() (in module pyranges.data)
chromosomes (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
chromsizes() (in module pyranges.data)
cluster() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
columns (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
control_bam() (in module pyranges.data)
copy() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
count_overlaps() (in module pyranges)
(in module pyranges.multioverlap)
(pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
coverage() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
cpg() (in module pyranges.data)
D
df (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
dfs (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
drop() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
drop_duplicate_positions() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
dtypes (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
E
empty (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
ensembl_gtf() (in module pyranges.data)
exons() (in module pyranges.data)
F
f1() (in module pyranges.data)
f2() (in module pyranges.data)
fdr() (in module pyranges.statistics)
features (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
fisher_exact() (in module pyranges.statistics)
five_end() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
forbes() (pyranges.statistics.StatisticsMethods method)
from_dict() (in module pyranges)
from_string() (in module pyranges)
G
gencode_gtf() (in module pyranges.data)
genome_bounds() (in module pyranges.genomicfeatures)
GenomicFeaturesMethods (class in pyranges.genomicfeatures)
get_fasta() (in module pyranges.get_fasta)
get_multithreaded_funcs() (in module pyranges.multithreaded)
get_n_args() (in module pyranges.multithreaded)
H
head() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
I
insert() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
intersect() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
introns() (pyranges.genomicfeatures.GenomicFeaturesMethods method)
items() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
itergrs() (in module pyranges)
J
jaccard() (pyranges.statistics.StatisticsMethods method)
join() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
K
k_nearest() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
keys() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
L
length (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
lengths() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
M
make_binary_sparse() (in module pyranges.multithreaded)
make_sparse() (in module pyranges.multithreaded)
make_unary_sparse() (in module pyranges.multithreaded)
mcc() (in module pyranges.statistics)
merge() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
merge_dfs() (in module pyranges.multithreaded)
mp() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
mpc() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
msp() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
mspc() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
N
nearest() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
new_position() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
O
overlap() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
P
pc() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
pr (pyranges.genomicfeatures.GenomicFeaturesMethods attribute)
(pyranges.statistics.StatisticsMethods attribute)
print() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
process_results() (in module pyranges.multithreaded)
pyrange_apply() (in module pyranges.multithreaded)
pyrange_apply_chunks() (in module pyranges.multithreaded)
pyrange_apply_single() (in module pyranges.multithreaded)
PyRanges (class in pyranges)
(class in pyranges.pyranges)
pyranges (module)
pyranges.data (module)
pyranges.genomicfeatures (module)
pyranges.get_fasta (module)
pyranges.multioverlap (module)
pyranges.multithreaded (module)
pyranges.pyranges (module)
pyranges.readers (module)
pyranges.statistics (module)
pyranges.stats (module)
pyranges.version (module)
R
random() (in module pyranges)
ray_initialized() (in module pyranges.multithreaded)
read_bam() (in module pyranges)
(in module pyranges.readers)
read_bed() (in module pyranges)
(in module pyranges.readers)
read_gff3() (in module pyranges)
(in module pyranges.readers)
read_gtf() (in module pyranges)
(in module pyranges.readers)
read_gtf_full() (in module pyranges.readers)
read_gtf_restricted() (in module pyranges.readers)
relative_distance() (pyranges.statistics.StatisticsMethods method)
rowbased_pearson() (in module pyranges.statistics)
rowbased_rankdata() (in module pyranges.statistics)
rowbased_spearman() (in module pyranges.statistics)
rp() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
rpc() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
S
sample() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
set_intersect() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
set_union() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
simes() (in module pyranges.statistics)
skiprows() (in module pyranges.readers)
slack() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
sort() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
sp() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
spc() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
split() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
StatisticsMethods (class in pyranges.statistics)
stats (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
stranded (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
strands (pyranges.PyRanges attribute)
(pyranges.pyranges.PyRanges attribute)
subset() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
subtract() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
summary() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
suppress_stdout_stderr (class in pyranges.multithreaded)
T
tail() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
tes() (pyranges.genomicfeatures.GenomicFeaturesMethods method)
three_end() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
tile() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
tile_genome() (in module pyranges.genomicfeatures)
to_bed() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_bigwig() (in module pyranges)
(pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_csv() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_example() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_gff3() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_gtf() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_rle() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
to_rows() (in module pyranges.readers)
to_rows_gff3() (in module pyranges.readers)
to_rows_keep_duplicates() (in module pyranges.readers)
tss() (pyranges.genomicfeatures.GenomicFeaturesMethods method)
U
ucsc_bed() (in module pyranges.data)
unstrand() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
V
values() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
W
window() (pyranges.PyRanges method)
(pyranges.pyranges.PyRanges method)
pyranges
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