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ma-compbio
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Higashi
single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
MIT License
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impute some of these cells with the trained model
#57
Accompany0313
opened
8 hours ago
0
resuming interrupted training and imputation using Higashi+FastHigashi protocol
#56
chooliu
opened
1 week ago
2
key error
#55
a1e-the
closed
2 weeks ago
1
config problem
#54
a1e-the
closed
2 weeks ago
1
how the cell_name in data.txt corresponds to the cell_type in label_info.pickle？
#53
LHXqwq
opened
2 months ago
3
The Dip-C data processing keeps encountering errors.
#52
a50044758
closed
2 months ago
3
RuntimeError: CUDA out of memory.
#51
MaoxuWang
closed
1 month ago
0
ValueError: setting an array element with a sequence.
#50
Accompany0313
closed
4 months ago
1
Higashi stuck on training at higashi_model.train_for_imputation_nbr_0() on SLURM system
#49
GMFranceschini
opened
5 months ago
7
RuntimeError: received 0 items of ancdata
#48
PeiKeGUO
opened
5 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
6 months ago
3
wrapper.fast_process_data() - method does not exist
#46
GMFranceschini
closed
6 months ago
2
Predicting structures from embedding vector
#45
donalday
closed
11 months 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
11 months 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
6 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
1 year ago
2
Problem on running FastHigashi on Ramani et al. dataset
#22
sdontsay
closed
1 year 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
2 years ago
8
Time consumption
#11
JohnGenome
closed
2 years ago
4
bug encountered
#10
zengguangjie
closed
3 years ago
4
Dev
#9
ruochiz
closed
3 years ago
0
Abount parameter neighbor_num
#8
zengguangjie
closed
3 years ago
10
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