cangermueller deepcpg issues

cangermueller / deepcpg

Deep neural networks for predicting CpG methylation

MIT License

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issues

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pip install deepcpg does not install tensorflow.

#43 shawarden opened 1 year ago
0
pip install deepcpg => bad interpreter: /anaconda3/envs/deepcpg/bin/python: no such file or directory

#42 shawarden opened 1 year ago
0
Negative strand index input

#41 yxwucq opened 1 year ago
0
Recommendations for using in Tumor Normal scenario

#40 harish0201 opened 2 years ago
0
Can't calculate the pair potential

#39 1920993165 opened 3 years ago
0
keras/tensorflow version incompatibility

#38 sameelab opened 3 years ago
0
keras / tensorflow version compatibility

#37 rekham1077 opened 4 years ago
2
Fails CpG module training

#36 yoramzarai opened 4 years ago
0
Problem with setup.sh when downloading cpg data

#35 yoramzarai closed 4 years ago
1
Download links for example data broken

#34 Mr-Pepe closed 1 year ago
0
CpG sites in the negative strand

#33 yasin-chop opened 4 years ago
3
Error in train.sh

#32 yasin-chop closed 4 years ago
1
Example data not accessible

#31 yasin-chop closed 4 years ago
1
Models in the zoo are not accessible

#30 yasin-chop opened 4 years ago
0
impute CpG values for gene by cell matrix

#29 shengyongniu opened 5 years ago
1
Unable to train joint model from pretrained cpg and dna model with tensorflow backend

#28 snajder-r opened 5 years ago
1
GPU utility in training only about 25%

#27 snajder-r opened 5 years ago
1
This software can only predict the methylation status not the exact methylation level right

#26 sixone11 opened 5 years ago
0
Can you provide pre-trained models from the DeepCpG model zoo

#25 Chamemee opened 5 years ago
0
CpG profiles file not found

#24 pegahmavaee opened 5 years ago
4
PCA of learnt motifs by DeepCpG

#23 janewangsmile opened 5 years ago
0
erros and warnings

#22 PoisonAlien closed 5 years ago
5
Error in dcpg_train.py

#21 timpeters82 closed 6 years ago
3
Error in execution of File fine_tune/index.ipynb

#20 Abhishek019 closed 6 years ago
1
Update setup.sh

#19 mina7928 closed 6 years ago
0
Cannot open the deep_cpg/notebooks/basics/index.ipynb

#18 JieYang031 closed 6 years ago
1
No access to ./data/anno.zip on the server

#17 JieYang031 closed 6 years ago
1
Error filter

#16 frankmarab closed 6 years ago
5
AttributeError: 'list' object has no attribute 'get_shape' when building model

#15 ajsteele closed 6 years ago
1
Keras/Tensorflow combatible versions

#14 eathieniti closed 6 years ago
2
ValueError: If printing histograms, validation_data must be provided, and cannot be a generator.

#13 AgentLjc closed 6 years ago
11
Fine tuning joint model doesn't seem to work.

#12 Bonder-MJ closed 6 years ago
2
Error in dcpg_eval.py: TypeError: len() of unsized object

#11 hui-tony-zk closed 6 years ago
1
how to test only one cell?

#10 PapaMadeleine2022 closed 6 years ago
1
confused on y and z in 'deepcpg/evaluate.py/evaluate(y, z, mask=CPG_NAN, metrics=CLA_METRICS)'

#9 PapaMadeleine2022 closed 6 years ago
1
can not find dcpg_eval_perf.Rmd

#8 PapaMadeleine2022 closed 6 years ago
1
a problem

#7 PapaMadeleine2022 closed 6 years ago
1
AttributeError: 'module' object has no attribute 'WeightRegularizer'

#6 PapaMadeleine2022 closed 6 years ago
1
can you provide datasets?

#5 PapaMadeleine2022 closed 7 years ago
2
Invalid file path or buffer object type: <class 'deepcpg.data.utils.GzipFile'>

#4 dnaase closed 6 years ago
10
Question about DeepCpG

#3 daquang closed 6 years ago
7
Installation

#2 AhmedJutt closed 6 years ago
0
Error running CpG model

#1 hui-tony-zk closed 7 years ago
3