ma-compbio/Higashi
single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
Jupyter NotebookMIT
Issues
- 1
- 7
Higashi stuck on training at higashi_model.train_for_imputation_nbr_0() on SLURM system
#49 opened by GMFranceschini - 0
RuntimeError: received 0 items of ancdata
#48 opened by PeiKeGUO - 3
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 opened by GMFranceschini - 16
ValueError: Found array with 1 feature(s) (shape=(250, 1)) while a minimum of 2 is required by TruncatedSVD
#26 opened by Samfouss - 2
- 5
higashi.Higashi_backend.Modules import error
#36 opened by bio-xtt - 2
Predicting structures from embedding vector
#45 opened by donalday - 2
- 3
Stop with OSError when run "higashi_model.train_for_imputation_nbr_0()"
#42 opened by yufanzhouonline - 1
ERROE when run process.py: no config file
#44 opened by shinohara-xiao - 20
higashi.process_data() won't finish
#35 opened by jshi7 - 0
What are the configure options mean?
#41 opened by khsjh - 5
Problem running Higashi on Ramani et al.
#40 opened by sdontsay - 5
The main_cell.py is so slow
#39 opened by yangfeizZZ - 1
error when running scTAD.py
#37 opened by jshi7 - 0
Error running simulated data
#38 opened by mxw010 - 2
Error running Ramani data
#34 opened by mxw010 - 5
question about cell order
#32 opened by Xieeeee - 10
NameError: name 'neg_num' is not defined
#29 opened by Queen0044 - 0
Problem solved
#33 opened by lhqxinghun - 5
Some problem about color
#31 opened by yangfeizZZ - 9
- 1
some question about json file
#28 opened by yangfeizZZ - 0
Some question about json file
#27 opened by yangfeizZZ - 2
- 2
- 2
Higashi_vis set up
#23 opened by BMDSKJ - 1
- 0
- 2
Moudle import error
#21 opened by Dududu233 - 1
Conda install doesn't work as expected
#20 opened by Dududu233 - 21
- 3
- 2
conda install not working
#16 opened by seburgess - 1
Cannot access to wiki/Higashi-config
#15 opened by JohnGenome - 4
Integration with deep sequenced bulk Hi-C
#14 opened by JohnGenome - 1
batch information not loaded?
#13 opened by sshen82 - 8
Illegal instruction
#12 opened by sshen82 - 4
Time consumption
#11 opened by JohnGenome - 4
bug encountered
#10 opened by zengguangjie - 10
Abount parameter neighbor_num
#8 opened by zengguangjie - 1
scTAD calling
#7 opened by tarak77 - 2
quick question
#6 opened by tarak77 - 7
"chrom_list" error
#5 opened by tarak77 - 4
General question
#4 opened by tarak77 - 1
About batch effect
#3 opened by sshen82 - 1
About parameter k in JSON file
#2 opened by sshen82 - 2
npy file not found error
#1 opened by sshen82