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29 Open 21 Closed
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Issues list

tutorials for additional datasets missing prio:high
#122 opened Mar 11, 2023 by ilibarra
3 tasks
fixing dynamical calculation step using sparse matrices
#121 opened Feb 2, 2023 by ilibarra
1 task
inspection of counts in scATAC seq object prio:medium
#120 opened Feb 1, 2023 by ilibarra
1 task
Move core notebooks to docs/notebooks prio:medium
#119 opened Jan 30, 2023 by ilibarra
1 task
@ilibarra
Sparsity module prio:medium
#118 opened Jan 28, 2023 by ilibarra
1 task
NaNs for CTCF and other multibatch cases when number of rounds is one prio:high
#117 opened Jan 25, 2023 by ilibarra
Test that compare CPU/GPU speeds needed
#116 opened Jan 22, 2023 by ilibarra
2 tasks
training using I/O for large datasets. prio:medium
#115 opened Jan 19, 2023 by ilibarra
1 task
Test for ChIP-seq processed data from bindome.. prio:medium
#114 opened Jan 18, 2023 by ilibarra
2 tasks
Calculation of relationships between related filters using distances graph prio:medium
#113 opened Jan 17, 2023 by ilibarra
2 tasks
test_aggregate raises errors prio:low
#112 opened Jan 16, 2023 by ilibarra
1 task
addition of connectivity graph and activities as mulsum when dynamical system provided prio:medium
#111 opened Jan 15, 2023 by ilibarra
1 task
Explore GRNN for atomic representations of protein sequences (instead of LSTMs). prio:low
#110 opened Jan 12, 2023 by ilibarra
1 task
Test for GenomicsDataset + optimize_iterative needed prio:high
#109 opened Jan 10, 2023 by ilibarra
1 task
atomic DNA/protein multi-hot encodings prio:low
#107 opened Jan 3, 2023 by ilibarra
7 tasks
addition of MultiBindStackConv2D class and addition to pipeline. prio:medium
#106 opened Jan 3, 2023 by ilibarra
4 tasks
renaming/refactoring of optimize_iterative/optimize function into model.MultiBind prio:medium
#105 opened Jan 3, 2023 by ilibarra
2 tasks
Addition of positional bias term prio:high
#103 opened Dec 22, 2022 by ilibarra
3 tasks
1
aggregation of filters/activities/etas into unified MultiBind instance prio:low
#102 opened Dec 19, 2022 by ilibarra
5 of 9 tasks
@ege-erdogan
6
Additional conv_di representations
#101 opened Dec 18, 2022 by ilibarra
5 tasks
@ege-erdogan
Include flag in SelexDataset to use sparse counts instead of non-sparse counts (default)
#97 opened Dec 13, 2022 by ilibarra
1 of 4 tasks
@ilibarra
1
Use models.multibind instead of models.selexDataset in mubind-pipeline and make tests in mubind
#95 opened Dec 13, 2022 by ilibarra
2 tasks
@ege-erdogan
6
Loss history is cut off
#83 opened Sep 12, 2022 by johschnee
scVI debugging with toy data.
#64 opened Jun 10, 2022 by ilibarra
1 task
Check _mononuc2rev and advanced indexing.
#63 opened Jun 10, 2022 by ilibarra
1 task done
@johschnee
1
ProTip! Adding no:label will show everything without a label.