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cangermueller
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deepcpg
Deep neural networks for predicting CpG methylation
MIT License
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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