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HiCExplorer
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
https://hicexplorer.readthedocs.org
GNU General Public License v3.0
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hicCorrectMatrix error message (numpy.core._exceptions.MemoryError)
#759
e-lerat
closed
2 years ago
1
hicAggregateContacts --mode inter-chr issue
#758
Drosophilid
opened
2 years ago
7
Develop
#757
joachimwolff
closed
2 years ago
0
hicHyperOptDetectLoops
#756
mtegtmey
closed
2 years ago
6
hicBuildMatrix : ImportError: Bio.Alphabet has been removed from Biopython.
#755
CocoMlle
opened
2 years ago
14
hicPlotDistVsCounts plot only cis
#754
wbszhu
closed
2 years ago
0
Conversion issue to mcool format
#753
JSegueni
closed
3 years ago
2
hicConvertFormat hicpro usage question
#752
erbon7
closed
3 years ago
2
issue with installation
#751
CocoMlle
closed
3 years ago
2
Again on insulation scores
#750
dawe
opened
3 years ago
3
Input matrix in tsv format
#749
nyuhic
closed
3 years ago
5
Develop
#748
joachimwolff
closed
3 years ago
0
Aggregate average strand information
#747
joachimwolff
closed
3 years ago
0
TAD validation
#746
hbandukw
closed
3 years ago
5
hicInfo sum of contacts
#745
joachimwolff
closed
3 years ago
1
Why does summing cis interaction using cooler give a different result from hicInfo (after hicAdjustMatrix-3.7 -iih)
#744
cgirardot
closed
3 years ago
5
issue with hicCovertFormat
#743
Lattesnow
closed
3 years ago
1
Develop
#742
joachimwolff
closed
3 years ago
0
Albert tad
#741
joachimwolff
closed
3 years ago
0
Loss of *.cool 'weight' column when working with hicAdjustMatrix; possible to retain 'weight' column?
#740
kalavattam
opened
3 years ago
2
How to exclude trans interaction from ICE correction
#739
cgirardot
closed
3 years ago
10
self ligation
#738
descostesn
closed
3 years ago
1
Hic plot matrix newfeatures
#737
joachimwolff
closed
3 years ago
0
Implementing a feature to return random principal components. User re…
#736
joachimwolff
closed
3 years ago
0
Bug fix for hicPCA with new test data and test case. Fix #719 #716 #7…
#735
joachimwolff
closed
3 years ago
0
h5 to cool usage in cooltools
#734
kimj50
closed
3 years ago
2
Interintratadratio
#733
joachimwolff
closed
3 years ago
0
Multi restriction sequence
#732
joachimwolff
closed
3 years ago
0
Interintraremoval
#731
joachimwolff
closed
3 years ago
0
Help interpreting insulation scores
#730
dawe
closed
3 years ago
3
Chic hdf
#729
joachimwolff
closed
3 years ago
0
Add W rank sum statistic to hicDifferentialTAD outpu
#728
dawe
closed
3 years ago
2
Output Ranksum statistics
#727
dawe
closed
3 years ago
1
Add ranksums statistics to hicDifferentialTAD output [feature request]
#726
dawe
closed
3 years ago
1
hicDifferentialTAD skips regions
#725
dawe
closed
3 years ago
7
Normalization and Correction after hic2cool
#724
RomeroMatt
closed
3 years ago
17
hicHyperoptDetectLoops adds chromosome prefix by default
#723
dawe
closed
3 years ago
1
Using external TAD definitions for hicDifferentialTAD
#722
dawe
closed
3 years ago
7
Low percentage of valid pairs and weird looking diagnostic plot
#721
JohnsonStev
closed
3 years ago
2
Error in hicBuildMatrix when multiple restriction enzymes have the same dangling sequence
#720
StephenRicher
closed
3 years ago
1
hicPCA using Gene Track
#719
mxw010
closed
3 years ago
6
Make it compatiblle with last versions of Biopython
#718
lldelisle
closed
3 years ago
1
hicPCA exhausting system resources and killed
#717
OdysseyXD
closed
3 years ago
4
hicPCA error when using gene track
#716
biozzq
closed
3 years ago
1
`hicSumMatrices` complains about different chromosome order while they should be the same
#715
cgirardot
closed
3 years ago
6
hicNormalize created empty matrix by normalizing to smallest
#714
sckinta
closed
3 years ago
3
Is there a difference to hicBuildMatrix at 1K + hicMergeMatrixBins to 5K vs hicBuildMatrix at 5K directly ?
#713
cgirardot
closed
3 years ago
3
compartmentalisation improvement
#712
LeilyR
opened
3 years ago
1
hicCompartmentalization question
#711
skytguuu
closed
3 years ago
1
--extraTrack only using the longest transcripts
#710
biozzq
closed
3 years ago
3
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