blockify
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Contents
Introduction
Installation
Tutorial
Tips and Tricks
blockify
Command: segment
Command: call
Command: normalize
Command: downsample
API: segmentation
API: annotation (peak calling)
API: normalization
API: downsampling
blockify
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Index
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Index
A
|
B
|
C
|
D
|
F
|
G
|
I
|
M
|
N
|
O
|
P
|
S
|
T
|
V
A
Algorithm (class in blockify.algorithms)
annotate() (in module blockify.annotation)
,
[1]
annotate_from_command_line() (in module blockify.annotation)
,
[1]
B
BayesianBlocks (class in blockify.algorithms)
blockify
module
blockify.algorithms
module
blockify.annotation
module
,
[1]
blockify.downsampling
module
,
[1]
blockify.normalization
module
,
[1]
blockify.parsers
module
blockify.segmentation
module
,
[1]
blockify.utilities
module
blocksToDF() (in module blockify.segmentation)
,
[1]
C
compute_ncp_prior() (blockify.algorithms.Algorithm method)
D
downsample() (in module blockify.downsampling)
,
[1]
downsample_from_command_line() (in module blockify.downsampling)
,
[1]
F
file_len() (in module blockify.utilities)
finalize() (blockify.segmentation.SegmentationRecord method)
,
[1]
fitness() (blockify.algorithms.Algorithm method)
(blockify.algorithms.BayesianBlocks method)
(blockify.algorithms.OptimalPartitioning method)
(blockify.algorithms.PELT method)
G
get_change_points() (blockify.algorithms.OptimalPartitioning static method)
getChromosomesInDF() (in module blockify.utilities)
getPeakSummits() (in module blockify.annotation)
,
[1]
I
isSortedBEDFile() (in module blockify.utilities)
isSortedBEDObject() (in module blockify.utilities)
M
module
blockify
blockify.algorithms
blockify.annotation
,
[1]
blockify.downsampling
,
[1]
blockify.normalization
,
[1]
blockify.parsers
blockify.segmentation
,
[1]
blockify.utilities
N
normalize() (in module blockify.normalization)
,
[1]
normalize_from_command_line() (in module blockify.normalization)
,
[1]
O
OptimalPartitioning (class in blockify.algorithms)
P
p0_prior() (blockify.algorithms.Algorithm method)
parcelConsecutiveBlocks() (in module blockify.annotation)
,
[1]
PELT (class in blockify.algorithms)
S
segment() (blockify.algorithms.Algorithm method)
(blockify.algorithms.OptimalPartitioning method)
(blockify.algorithms.PELT method)
(in module blockify.segmentation)
,
[1]
segment_from_command_line() (in module blockify.segmentation)
,
[1]
SegmentationRecord (class in blockify.segmentation)
,
[1]
sizeFilter() (in module blockify.annotation)
,
[1]
T
tighten() (in module blockify.annotation)
,
[1]
V
validate_input() (blockify.algorithms.Algorithm static method)
validateAnnotationArguments() (in module blockify.annotation)
,
[1]
validateNormalizationArguments() (in module blockify.normalization)
,
[1]
validateSegmentationArguments() (in module blockify.segmentation)
,
[1]