ma-compbio Higashi issues

ma-compbio / Higashi

single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph

MIT License

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issues

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call TADs

#58 Accompany0313 opened 2 days ago
0
impute some of these cells with the trained model

#57 Accompany0313 opened 2 months ago
1
resuming interrupted training and imputation using Higashi+FastHigashi protocol

#56 chooliu closed 2 months ago
4
key error

#55 a1e-the closed 3 months ago
1
config problem

#54 a1e-the closed 3 months ago
1
how the cell_name in data.txt corresponds to the cell_type in label_info.pickle？

#53 LHXqwq closed 2 months ago
3
The Dip-C data processing keeps encountering errors.

#52 a50044758 closed 4 months ago
3
RuntimeError: CUDA out of memory.

#51 MaoxuWang closed 4 months ago
0
ValueError: setting an array element with a sequence.

#50 Accompany0313 closed 6 months ago
1
Higashi stuck on training at higashi_model.train_for_imputation_nbr_0() on SLURM system

#49 GMFranceschini opened 7 months ago
7
RuntimeError: received 0 items of ancdata

#48 PeiKeGUO opened 8 months ago
0
ValueError: setting an array element with a sequence. The requested array has an inhomogeneous shape after 1 dimensions. The detected shape was (15361,) + inhomogeneous part.

#47 GMFranceschini closed 8 months ago
3
wrapper.fast_process_data() - method does not exist

#46 GMFranceschini closed 9 months ago
2
Predicting structures from embedding vector

#45 donalday closed 1 year ago
2
ERROE when run process.py: no config file

#44 shinohara-xiao closed 1 year ago
1
Error in fh_model.prep_dataset() "Pack from sparse mtx to tensors"

#43 XiongGZ closed 1 year ago
2
Stop with OSError when run "higashi_model.train_for_imputation_nbr_0()"

#42 yufanzhouonline opened 1 year ago
6
What are the configure options mean?

#41 khsjh opened 1 year ago
0
Problem running Higashi on Ramani et al.

#40 sdontsay closed 1 year ago
5
The main_cell.py is so slow

#39 yangfeizZZ opened 1 year ago
5
Error running simulated data

#38 mxw010 opened 1 year ago
0
error when running scTAD.py

#37 jshi7 closed 1 year ago
1
higashi.Higashi_backend.Modules import error

#36 bio-xtt opened 1 year ago
5
higashi.process_data() won't finish

#35 jshi7 closed 1 year ago
20
Error running Ramani data

#34 mxw010 opened 1 year ago
2
Problem solved

#33 lhqxinghun closed 1 year ago
0
question about cell order

#32 Xieeeee closed 1 year ago
5
Some problem about color

#31 yangfeizZZ closed 1 year ago
5
FastHigashi wrapper.prep_dataset: 'int' object has no attribute 'shape'

#30 Xieeeee closed 1 year ago
9
NameError: name 'neg_num' is not defined

#29 Queen0044 closed 1 year ago
10
some question about json file

#28 yangfeizZZ closed 1 year ago
1
Some question about json file

#27 yangfeizZZ closed 1 year ago
0
ValueError: Found array with 1 feature(s) (shape=(250, 1)) while a minimum of 2 is required by TruncatedSVD

#26 Samfouss closed 9 months ago
16
Generating a hdf5 file for storing the coassayed signals

#25 nedashokraneh closed 1 year ago
2
Higashi gets error during higashi_model.process_data()

#24 AmyTanJ closed 1 year ago
2
Higashi_vis set up

#23 BMDSKJ closed 2 years ago
2
Problem on running FastHigashi on Ramani et al. dataset

#22 sdontsay closed 2 years ago
1
Moudle import error

#21 Dududu233 closed 2 years ago
2
Conda install doesn't work as expected

#20 Dududu233 closed 2 years ago
1
Higahi stop at train_for_imputation_nbr_0 on both API and CLI.

#19 EddieLv closed 2 years ago
0
Higahi stop at train_for_imputation_nbr_0 on both API and CLI.

#18 EddieLv closed 2 years ago
21
I cannot install Higashi through conda. My computer doesn't have gpu.

#17 EddieLv closed 2 years ago
3
conda install not working

#16 seburgess closed 2 years ago
2
Cannot access to wiki/Higashi-config

#15 JohnGenome closed 2 years ago
1
Integration with deep sequenced bulk Hi-C

#14 JohnGenome closed 2 years ago
4
batch information not loaded?

#13 sshen82 closed 2 years ago
1
Illegal instruction

#12 sshen82 closed 3 years ago
8
Time consumption

#11 JohnGenome closed 3 years ago
4
bug encountered

#10 zengguangjie closed 3 years ago
4
Dev

#9 ruochiz closed 3 years ago
0