FunctionLab selene issues

FunctionLab / selene

a framework for training sequence-level deep learning networks

BSD 3-Clause Clear License

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issues

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Add H5 GenomicFeatures support for more flexible target datatypes

#200 kathyxchen opened 2 months ago
0
Adjust lower bound for NumPy/Cython dependency requirements

#199 kathyxchen closed 2 months ago
0
Python 3.9+ fix for Numpy/Cython .pyx issue

#198 kathyxchen closed 2 months ago
0
tangermeme backend

#197 jmschrei opened 4 months ago
0
pyfaidx.Fasta kwargs for sequences.Genome()?

#196 mkarikom closed 9 months ago
1
Is there a model fine-tuning function?

#195 HanwenZhu98 opened 9 months ago
0
Columns and DataType Not Explicitly Set on line 25 of download_data.py

#194 CodeSmileBot opened 11 months ago
0
version update

#193 guandailu opened 1 year ago
0
New version Selene for PyTorch2.0.0?

#192 jinyiliu1998 closed 1 year ago
0
print selene_sdk version, add config and model file to output, add ra…

#191 ygliu2016 opened 1 year ago
9
Model source code file should be copied to the output directory

#190 evancofer opened 1 year ago
0
Loggers never close

#189 rfriedman22 opened 1 year ago
0
Updating seqweaver

#188 aviyalitman closed 11 months ago
2
Variant effect prediction REF mismatch

#187 okurman closed 7 months ago
1
TypeError: get_predictions() got an unexpected keyword argument 'input_path'

#186 WeiCSong closed 2 years ago
1
Use Selene to predict variant effects genome-wide

#185 andrewSharo closed 2 years ago
2
Early stopping and other parameters for learning rate scheduler

#184 rfriedman22 closed 2 years ago
2
Support for other schedulers and early stopping

#183 rfriedman22 closed 2 years ago
2
model is suitable for classification？

#182 Jasonxu0109 opened 2 years ago
0
set deterministic parameter in TrainModel

#181 kathyxchen closed 2 years ago
0
Slowdown of variant effect prediction with `torch.backends.cudnn.deterministic = True`

#180 kathyxchen closed 2 years ago
4
Bugfix for #178

#179 rfriedman22 closed 3 years ago
3
AnalyzeSequences bug due to Genome object

#178 rfriedman22 closed 3 years ago
2
add isinstance check of Sampler to FileSampler in MultiSampler class

#177 kathyxchen closed 3 years ago
0
Allow for assessing performance in multi-class classification setting

#176 rfriedman22 closed 3 years ago
4
Bug fix for slicing bases_arr

#175 rfriedman22 closed 3 years ago
1
Type errors with in silico mutagenesis visualization

#174 rfriedman22 closed 3 years ago
2
Additional seeding for reproducibility

#173 rfriedman22 closed 3 years ago
1
update version to 0.5.0

#172 kathyxchen closed 3 years ago
0
Minor documentation updates ahead of 0.5.0 release

#171 kathyxchen closed 3 years ago
0
Fix MultiSampler test partition bug

#170 kathyxchen closed 3 years ago
0
Bug fixes to parse learning rate from configs

#169 rfriedman22 closed 3 years ago
2
Bugfixes for EvaluateModel and MatFileSampler

#168 kathyxchen closed 3 years ago
0
Bugs checking for learning rate during config parsing

#167 rfriedman22 closed 3 years ago
2
MultiSampler missing test sampler in iterators

#166 kathyxchen closed 3 years ago
0
Log average train loss over nth_step_report_stats

#165 arlapin closed 3 years ago
2
Let EvaluateModel accept a list of metrics

#164 arlapin closed 3 years ago
2
Support multi-inputs

#163 arlapin opened 3 years ago
1
Fix a typo and documentation

#162 arlapin closed 3 years ago
2
Support NN models with multiple inputs

#161 sashuIya opened 3 years ago
2
Delete autograd.Variable as it is deprecated since pytorch v0.4.1

#160 arlapin closed 3 years ago
2
Ignore downloaded data and local VS Code config

#159 arlapin closed 3 years ago
3
Fix wrong filename

#158 sashuIya closed 3 years ago
2
Prediction yaml file for Seqweaver

#157 vagarwal87 closed 3 years ago
4
Documentation fix

#156 kathyxchen closed 3 years ago
0
Documentation Formatting

#155 mmingay closed 3 years ago
1
Fix variable name for consistency with CLI configs

#154 kathyxchen closed 3 years ago
0
Improve CLI

#153 cthoyt closed 3 years ago
2
Include CLI within the package

#152 cthoyt closed 3 years ago
0
In CASE1 Unresolved reference '_genomic_features' , Unresolved reference '_sequence'

#151 yinuolb closed 4 years ago
1