NVIDIA-Genomics-Research AtacWorks issues

NVIDIA-Genomics-Research / AtacWorks

Deep learning based processing of Atac-seq data

https://clara-parabricks.github.io/AtacWorks/

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Add interactive docker command

#201 ntadimeti closed 3 years ago
0
SA review

#200 ntadimeti closed 3 years ago
0
pyYaml outputs None as "null". atacworks does not recognize null.

#199 ntadimeti opened 3 years ago
0
new version of bigwig files for pre-trained models to contain ALL chroms

#198 ntadimeti opened 3 years ago
0
combine tile_interval functions in utils.py

#197 ntadimeti closed 3 years ago
1
Update tutorial notebooks

#196 ntadimeti closed 3 years ago
0
Trying to pip install on a cluster

#195 hugokitano closed 3 years ago
53
Add support to read h5 files

#194 ntadimeti closed 3 years ago
0
Cleaning up docs

#193 ntadimeti closed 3 years ago
0
Add advanced section in documentation

#192 ntadimeti closed 3 years ago
1
Add otuput resolution

#191 ntadimeti closed 3 years ago
0
write binned

#190 ntadimeti closed 4 years ago
0
Add regions flag

#189 ntadimeti closed 3 years ago
0
tutorial2: Inference output data

#188 hugokitano closed 4 years ago
1
Remove unncessary args

#187 ntadimeti closed 3 years ago
0
Revert "Alal/write binned"

#186 ntadimeti closed 4 years ago
0
Add unit testing for bigwigio.py and bedgraphio.py

#185 rmovva closed 3 years ago
1
Convert scripts to modules

#184 ntadimeti closed 4 years ago
0
Encode intervals, sizes data into h5 files itself.

#183 ntadimeti opened 4 years ago
0
Add unit testing for bedio.py and h5io.py

#182 ntadimeti closed 4 years ago
0
WIP: Remove individual scripts and modularize the pre-processing steps

#181 ntadimeti closed 4 years ago
3
[CI] Add local prebuild script

#180 ohadmo closed 4 years ago
0
PYPI installation script

#179 ntadimeti closed 4 years ago
4
Alal/write binned

#178 avantikalal closed 4 years ago
1
Change --gpu to --gpu_id to clarify the functionality

#177 ntadimeti closed 4 years ago
3
Update documentation, point to jupyter notebooks

#176 ntadimeti closed 4 years ago
0
Trying Atacworks on custom data

#175 ntadimeti closed 3 years ago
10
CI scripts cleanup

#174 ohadmo closed 4 years ago
2
Update documentation

#173 ntadimeti closed 4 years ago
1
Add entry point script to atacworks

#172 ntadimeti closed 4 years ago
1
Alal/docs

#171 avantikalal closed 4 years ago
2
Add set of standard config files

#170 avantikalal opened 4 years ago
0
Input/output binned data

#169 avantikalal closed 4 years ago
0
replace gpu: None with a more intuitive config option

#168 ntadimeti closed 4 years ago
2
Jupyter notebooks for tutorials

#167 ntadimeti closed 4 years ago
9
invalid_crossdevice_link

#166 ntadimeti closed 4 years ago
1
Add sphinx docs

#165 ntadimeti closed 4 years ago
2
Always clone master branch in docker

#164 ntadimeti closed 4 years ago
0
Create pre-trained model registry on NGC

#163 ntadimeti closed 4 years ago
1
AWS AMI

#162 ntadimeti opened 4 years ago
0
Sphynx documentation

#161 ntadimeti closed 4 years ago
2
Move tutorials into jupyter notebook format from md files.

#160 ntadimeti closed 4 years ago
2
enable automated docker image upload with new merges to master

#159 ntadimeti opened 4 years ago
1
Pick up custom config files

#158 ntadimeti closed 4 years ago
2
WIP: Parse tutorials and test the code snippets

#157 ntadimeti closed 4 years ago
1
Remove pre-processing scripts and call them as modules in main script.

#156 ntadimeti closed 4 years ago
1
Custom configs not being picked up by main.py script.

#155 ntadimeti closed 4 years ago
1
updated output folder name in tutorial 1

#154 avantikalal closed 4 years ago
3
main.py infer: error: argument --gpu: invalid int value: 'None'

#153 feefee20 closed 4 years ago
51
Update command line options and tutorials

#152 ntadimeti closed 4 years ago
3

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