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NVIDIA-Genomics-Research
/
AtacWorks
Deep learning based processing of Atac-seq data
https://clara-parabricks.github.io/AtacWorks/
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Update command line options and tutorials
#152
ntadimeti
closed
4 years ago
3
added pretrained models list
#151
avantikalal
closed
4 years ago
0
Set seed
#150
ntadimeti
closed
4 years ago
0
Update library name to atacworks
#149
ntadimeti
closed
4 years ago
1
Add FAQ on shm-size and add Dockerfile setuptools upgrade
#148
ntadimeti
closed
4 years ago
4
Fix typo in training
#147
ntadimeti
closed
4 years ago
2
Fix typo in training
#146
ntadimeti
closed
4 years ago
3
Exception: Invalid format for file paths provided
#145
feefee20
closed
4 years ago
5
Optimize writer performance during inference
#144
ntadimeti
closed
4 years ago
1
Default to gpu 0 when requested index is more than number of devices
#143
ntadimeti
closed
4 years ago
3
Revert "Default to gpu index 0 if requested GPU index greater than nuber of devices"
#142
ntadimeti
closed
4 years ago
0
Prefetch layers in inference to avoid OOM issues
#141
ntadimeti
closed
4 years ago
0
Fix inference bug in classification. add test
#140
ntadimeti
closed
4 years ago
0
Automatically select GPU:0 if only one GPU is available
#139
avantikalal
closed
4 years ago
0
Single gpu fix
#138
avantikalal
closed
4 years ago
0
Remove example folder references
#137
ntadimeti
closed
4 years ago
0
dev-v0.2.0 release
#136
ntadimeti
closed
4 years ago
0
Update copyright to 2020
#135
ntadimeti
closed
4 years ago
0
Error during writing to bigWig
#134
zchiang
closed
4 years ago
4
No space left on device error during inference
#133
zchiang
closed
4 years ago
6
Remove example folder
#132
ntadimeti
closed
4 years ago
0
Add layers
#131
ntadimeti
closed
4 years ago
0
Fix resume functionality in training.
#130
ntadimeti
opened
4 years ago
0
When training on specific GPU, do not print Distributed to N GPUs msg
#129
ntadimeti
closed
4 years ago
0
Add subparsers to main.py
#128
ntadimeti
closed
4 years ago
4
Add example/run.sh test back
#127
ntadimeti
closed
4 years ago
0
bam -> bigwig script?
#126
egafni
closed
4 years ago
5
Remove example/run.sh
#125
ntadimeti
closed
4 years ago
1
bugfix: allow more than one layer
#124
avantikalal
closed
4 years ago
0
Do not print multi-gpu message if training on a single gpu
#123
avantikalal
closed
4 years ago
1
package and upload atacworks to PyPi
#122
ntadimeti
closed
4 years ago
2
Add setup.py
#121
ntadimeti
closed
4 years ago
1
Print custom message when test fails
#120
ntadimeti
closed
4 years ago
0
Remove creation of config_dir from train_worker. Crashes during multi node training
#119
ntadimeti
closed
4 years ago
0
Multi-gpu model training does not work
#118
avantikalal
closed
4 years ago
2
fixed the link to the preprint paper
#117
foertter
closed
4 years ago
0
add custom messages to tests.
#116
ntadimeti
closed
4 years ago
1
WIP: Help docs
#115
avantikalal
closed
4 years ago
4
Fix to include ends of chromosomes.
#114
avantikalal
opened
4 years ago
2
peak2bw : Automate skipping of headers.
#113
ntadimeti
closed
4 years ago
3
fix peak2bw imports and saving
#112
avantikalal
closed
4 years ago
0
Tutorials
#111
avantikalal
closed
4 years ago
5
WIP: Add detailed help.
#110
ntadimeti
closed
4 years ago
3
Add end-to-end tests
#109
ntadimeti
closed
4 years ago
1
AtacWorks models are not identical
#108
ntadimeti
closed
4 years ago
2
[get_intervals.py] Fix prefix usage
#107
ntadimeti
closed
4 years ago
0
misc fixes to review
#106
ntadimeti
closed
4 years ago
3
Move afunc to model_structure.yaml
#105
ntadimeti
closed
4 years ago
0
Preventing NaN output from pearson correlation loss function
#104
avantikalal
closed
4 years ago
0
Motif model
#103
avantikalal
closed
4 years ago
1
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