deeptools HiCExplorer issues

deeptools / 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

222 stars 68 forks source link

issues

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Release 3.7.5

#902 lldelisle closed 1 week ago
0
Fix version

#901 lldelisle closed 1 week ago
0
HiC merging bins

#900 kunaltin2012 opened 2 months ago
0
error in running hicDetectLoops

#899 pangulu opened 3 months ago
0
About hicPCA error

#898 HW-Superior opened 3 months ago
0
Can I use hicDifferentialTAD to analyze the TAD differences among three samples?

#897 ZJU-Plumber opened 3 months ago
0
hicFindTADs difficult to distinguish different TADs

#896 wangguiqian opened 3 months ago
3
hicCorrectMatrix correct

#895 wangguiqian opened 3 months ago
0
problem with hicAggragateContacts

#894 eferreA9 opened 4 months ago
0
installation failure :: trained_models missing from requirements

#893 EricDeveaud opened 4 months ago
0
hicPCA flip signs with rna-seq?

#892 Naveen-Ahuja opened 4 months ago
1
LearningWithNoisyLabels was renamed to

#891 bgruening opened 4 months ago
0
hicTrainTADClassifier raises ValueError

#890 bgruening opened 4 months ago
1
hicMergeLoops throws an error

#889 portbo closed 4 months ago
1
hicBuildMatrix TypeError

#888 Claudiolete closed 4 months ago
1
problem with chicViewpoint

#887 robin-sto closed 4 months ago
1
how to plot a hic matrix starting from a .hic file?

#886 AlcaArctica closed 4 months ago
3
--genome not working

#885 robertferr opened 5 months ago
1
HiCExplorer 3.5.2

#884 robin-sto closed 6 months ago
2
hicPCA " invalid literal" error message

#883 erbon7 opened 7 months ago
2
hicCompareMatrices between 2 cool format files

#882 BenxiaHu opened 7 months ago
3
hicBuildMatrix hicCorrectMatrix ValueError: Axis limits cannot be NaN or Inf

#881 lkiko opened 7 months ago
0
chicViewpoint hangs indefinitely when reference file is a BED file with (non-unique) gene names in 4th column

#880 mtekman opened 7 months ago
0
Question about sorting bam files

#879 Naveen-Ahuja closed 2 months ago
4
Maintenance update

#878 joachimwolff closed 7 months ago
0
chicViewpointBackgroundModel and `np.int` aliases deprecated in NumPy 1.20

#877 amv33576 opened 7 months ago
7
chicQualityControl fails with ImportError (conda version 3.7.2)

#876 mtekman opened 8 months ago
2
add new little requested features

#875 pavanvidem closed 2 months ago
6
Update ISSUE_TEMPLATE.md to suggest pgt

#874 lldelisle closed 7 months ago
0
Installation with newer version of `matplotlib`: "`ValueError: Passing a Normalize instance simultaneously with vmin/vmax is not supported.`"

#873 kalavattam closed 7 months ago
1
There is no data for the region considered on the matrix.

#872 ec233133 opened 8 months ago
7
AttributeError: module 'cooler' has no attribute 'io'

#871 vakh57 closed 7 months ago
3
Installation issue.

#870 ratheraarif opened 9 months ago
1
hicNormalize Behavior of operations on cool file

#869 rysterzhu opened 10 months ago
1
hicPlotMatrix "--region 1:10000000-50000000" option is abnormal

#868 JiaoLaboratory opened 10 months ago
1
hicPCA -we default option

#867 StrohD opened 10 months ago
2
isuue with mcool to hic

#866 zzhoujialu opened 11 months ago
2
ValueError: not enough values to unpack (expected 3, got 0)

#865 guo-cheng opened 11 months ago
0
conda/mamba installation not working with python=3.11

#864 aminakur opened 11 months ago
3
hicDifferentialTAD TypeError

#863 CriticalSci opened 12 months ago
1
'Styler' object has no attribute 'render'

#862 pillailab opened 12 months ago
3
conda install problem

#861 jiangshan529 opened 1 year ago
1
hicDetectLoops 'neihgborhood_unsmoothed' is not defined

#860 Matheo-LESNE opened 1 year ago
1
hicPlotMatrix to make one heatmap plot for two conditions

#859 liufuyan2016 opened 1 year ago
0
hicPCA error

#858 MurliNair closed 11 months ago
5
Abound hicexplorer tools

#857 GleeenSIBS closed 4 months ago
1
--setToZeroThreshold 1.0 for normalization method smallest

#856 MWSchmid opened 1 year ago
0
mamba/conda installation hicexplorer>=3.5 on Red Hat

#855 vmukhina opened 1 year ago
0
How to differ the loops we detect from exp and ctl?

#854 wikk-chy opened 1 year ago
1
Incompatibility issue with cooler=0.9.1

#853 JSegueni opened 1 year ago
5