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18 Open 4 Closed
18 Open 4 Closed
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Issues list

Training step fails with undefined variable 'chroms'
#36 opened May 9, 2024 by gregorydonahue
shap_scores aren't compatible with non-bias models
#30 opened May 17, 2022 by mlweilert
parameter tweaking for Dnase/ATAC-seq data
#29 opened May 10, 2022 by ChangxuFan
1
shap scores for multi-task
#28 opened May 6, 2022 by nzhang89
Test entire pipeline for chromatin models
#24 opened Jan 11, 2022 by zahoorz
@zahoorz
Test entire pipeline for TF models
#23 opened Jan 11, 2022 by zahoorz
@zahoorz
Test if shap is working fine for all newly created models
#22 opened Jan 11, 2022 by zahoorz
@zahoorz
Add hit scoring feature as new command
#21 opened Jan 11, 2022 by zahoorz
@zahoorz
Update modisco version
#20 opened Jan 11, 2022 by zahoorz
@zahoorz
2
Integrate new batch generator that combines foreground and background loci enhancement New feature or request
#19 opened Jan 11, 2022 by zahoorz
@zahoorz
[suggestion] Allow the user to give a counts-loss-weight value in input_data.json
#15 opened Jun 7, 2021 by mmtrebuchet
[suggestion] Remove --stranded and --has-control flags; infer these from input_data.json
#14 opened Jun 7, 2021 by mmtrebuchet
Interpretation failing due to old deepLIFT version
#12 opened Apr 16, 2021 by suragnair
Add an option to predict allowing for a bed file of regions to predict
#11 opened Apr 2, 2021 by mmtrebuchet
[Suggestion] Read in custom architecture and loss functions from command line
#10 opened Feb 24, 2021 by mmtrebuchet
1
bug in Counts Pearson metric
#6 opened Nov 25, 2020 by manyu90
Installation fails due to tensorflow requirement
#3 opened Sep 23, 2020 by jmschrei
1
bedGraphToBigWig error in README example
#2 opened Sep 23, 2020 by jmschrei
3
ProTip! Exclude everything labeled bug with -label:bug.