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open2c
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coolpuppy
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
MIT License
77
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saddle plot score
#106
BenxiaHu
closed
1 year ago
1
Added groupby option to CLI. Version number saved in metadata. Removed incl_chrs and excl_chrs
#105
efriman
closed
1 year ago
1
Install error: module 'coolpuppy.lib'
#104
OdysseyXD
closed
1 year ago
2
Moved plotpup.py into coolpuppy folder. Plot logging. Minor plotting tweaks
#103
efriman
closed
1 year ago
1
how to plot difference
#102
BenxiaHu
closed
1 year ago
6
saddle plot
#101
BenxiaHu
closed
1 year ago
1
heatmap value
#100
BenxiaHu
closed
1 year ago
3
coverage_norm incompatible with unreleased cooltools
#99
efriman
closed
1 year ago
1
plot TAD error
#98
BenxiaHu
closed
1 year ago
6
installation error
#97
BenxiaHu
closed
1 year ago
12
Minor plotting tweaks
#96
efriman
closed
1 year ago
2
User facing convenient functions
#95
Phlya
closed
1 year ago
1
Restructure
#94
Phlya
closed
1 year ago
1
Bug fixes
#93
efriman
closed
1 year ago
1
Col/row sorting as in --input_pups are sorted in input unless otherwise specified
#92
efriman
closed
1 year ago
0
Major plotting tweaks
#91
efriman
closed
1 year ago
1
[plotpup.py] How to draw multiple plots at once?
#90
Soh-hyon
closed
1 year ago
10
How to deal with KeyError and ValueError?
#89
Soh-hyon
closed
2 years ago
2
Store scores
#88
Phlya
closed
2 years ago
1
ImportError: cannot import name 'snipping' from 'cooltools'
#87
Irenexzwen
closed
2 years ago
4
Recreating figure: And here is a real example of CTCF-associated loops in ES cells:
#86
mattbramble
closed
2 years ago
5
Study the correlation scaled pile up (aggregated) plot of TADs with box plot of TADs strength
#85
sachingadakh
closed
1 year ago
15
Hdf5 optimized saving for stripes, compression options
#84
efriman
closed
2 years ago
1
Add coverage using cooltools.coverage
#83
Phlya
closed
2 years ago
0
confused on parameter
#82
BenxiaHu
closed
2 years ago
2
Changed flip_negative strand behaviour to work properly for non-local pileups
#81
efriman
closed
2 years ago
0
Divide pileups, plotting tweaks
#80
efriman
closed
2 years ago
1
I got different results from the example with test data
#79
hanshanmengqi
closed
2 years ago
2
Add feature to divide two pileups and plot
#78
efriman
closed
2 years ago
0
Fixed bug where NaNs were incorrectly marked
#77
efriman
closed
2 years ago
0
Fixed tutorial png
#76
efriman
closed
2 years ago
1
Updated tutorials. Minor fixes
#75
efriman
closed
2 years ago
1
Hdf5-saving stripes
#74
efriman
closed
2 years ago
0
plotpup.py TypeError: __init__() got an unexpected keyword argument 'add_all'
#73
odovgusha
opened
2 years ago
2
ValueError: invalid literal for int() with base 10: '.\n'
#72
odovgusha
closed
2 years ago
3
Bug fixes, font selection, by_distance edge selection using CLI
#71
efriman
closed
2 years ago
1
API saving add 'features'
#70
efriman
closed
2 years ago
0
Fix coverage for trans
#69
efriman
closed
2 years ago
1
KeyError: 'coordinates'
#68
iagooteroc
closed
2 years ago
10
coolpup.py Pile-ups of predefined regions pairs,
#67
mb6434
closed
2 years ago
4
Fixed inverted second half of corner stripe
#66
efriman
closed
2 years ago
0
Fixed corner_stripe inversion bug
#65
efriman
closed
2 years ago
0
Merge from trans branch
#64
efriman
closed
2 years ago
1
Merge with trans, bug fixes
#63
efriman
closed
2 years ago
1
Merge with trans
#62
efriman
closed
2 years ago
1
Fixed bugs with rescaling. renamed fraction_flank to rescale_flank
#61
efriman
closed
2 years ago
0
Merge
#60
efriman
closed
2 years ago
0
coolpup.py snipping from cooltools error
#59
yloemie
closed
2 years ago
5
Update tutorials
#58
efriman
closed
2 years ago
0
Stripe saving inefficient, hdf5-optimize
#57
efriman
closed
2 years ago
0
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