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Genentech
/
gReLU
gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
https://genentech.github.io/gReLU/
MIT License
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updated available motif sets
#83
avantikalal
closed
3 days ago
0
Training multitask model
#82
nkempynck
opened
6 days ago
2
Bugfix
#81
avantikalal
closed
2 weeks ago
0
Incompatibility between modisco with ISM and Specificify transform with subtract function
#80
dagarfield
opened
2 weeks ago
1
add multiomial axis option to poisson multinomial loss
#79
avantikalal
closed
2 weeks ago
0
Flash Attention support
#78
suragnair
closed
4 weeks ago
0
Add onehot encoding dataset
#77
HelloWorldLTY
opened
1 month ago
0
Loading custom models
#76
saninta0212
opened
1 month ago
1
Use tangermeme backend for tomtom
#75
avantikalal
closed
2 weeks ago
0
WIP: use Tangermeme backend for tomtom
#74
avantikalal
closed
1 month ago
0
WIP: Score FIMO hits with attributions
#73
avantikalal
opened
1 month ago
0
Questions about the acceptable sequence length of borzoi
#72
HelloWorldLTY
opened
1 month ago
3
Saliency
#71
avantikalal
closed
1 month ago
0
Update motifs in resources
#70
avantikalal
opened
1 month ago
0
Updated motif processing to Tangermeme 0.4
#69
avantikalal
closed
2 weeks ago
1
Add axis option to poissonmultinomial loss
#68
avantikalal
closed
2 weeks ago
0
fixed and updated plot_tracks
#67
avantikalal
closed
1 month ago
0
updated merge_intervals function to account for strand
#66
avantikalal
closed
3 weeks ago
0
Support indels
#65
avantikalal
opened
1 month ago
0
Support fast attention
#64
avantikalal
closed
4 weeks ago
1
Consider strand column in `merge_intervals`
#63
avantikalal
closed
3 weeks ago
0
Add a function to plot motif logos
#62
avantikalal
opened
1 month ago
0
Fix annotation direction in plot_tracks
#61
avantikalal
closed
1 month ago
0
Add attribution score for motif hits
#60
avantikalal
opened
1 month ago
0
Check chromosomes when fine tuning?
#59
avantikalal
opened
1 month ago
0
Remove pretrainedmodel classes
#58
avantikalal
opened
1 month ago
0
Save gReLU version in checkpoints
#57
avantikalal
opened
1 month ago
0
Enable deepshap for enformer models
#56
avantikalal
opened
1 month ago
0
Update tangermeme backend
#55
avantikalal
closed
2 weeks ago
0
Automatically catch intervals which extend beyond the chr?
#54
cafletezbrant
opened
1 month ago
1
[pre-commit.ci] pre-commit autoupdate
#53
pre-commit-ci[bot]
closed
1 month ago
0
How to change the location of genome downloading path?
#52
HelloWorldLTY
opened
1 month ago
0
Pin torchmetrics version
#51
gokceneraslan
closed
1 month ago
0
Add precision to the pl.Trainer constructors
#50
gokceneraslan
closed
1 month ago
0
added preprint link
#49
avantikalal
closed
2 months ago
0
Questions about extracting variants with grelu
#48
HelloWorldLTY
closed
1 month ago
5
guidelines to implement custom models
#47
MiqG
opened
2 months ago
1
Can't view available models
#46
Al-Murphy
closed
1 month ago
2
Questions about reading variants
#45
HelloWorldLTY
opened
2 months ago
3
updated pre-commit hooks
#44
ekageyama
closed
2 months ago
5
WIP: Scan attr
#43
avantikalal
closed
1 month ago
0
Support alternative normalization methods
#42
MuhammedHasan
closed
2 months ago
3
Add bigwig hdf5-backed dataset
#41
mtvector
opened
3 months ago
0
Plans for on disk dataloaders?
#40
mtvector
closed
1 month ago
3
[pre-commit.ci] pre-commit autoupdate
#39
pre-commit-ci[bot]
closed
2 months ago
0
Making train_params and model_params functional to add documentation and avoid duplication
#38
gokceneraslan
opened
3 months ago
6
replaced .A with .toarray()
#37
avantikalal
closed
3 months ago
2
allow custom blacklist file
#36
avantikalal
closed
3 months ago
0
fixed bug in pypi-publish workflow
#35
avantikalal
closed
4 months ago
0
Update doc string and input allowances for grelu.sequence.utils.resize
#34
dagarfield
opened
4 months ago
0
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