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aertslab
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CREsted
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Error when using crested.pl.patterns.contribution_scores with multiple class_labels and multiple regions
#46
lldelisle
opened
1 week ago
1
Error in calculate_contribution_scores_regions with pytorch
#45
lldelisle
opened
1 week ago
8
Allow BED file with entries for chromosomes which are not in the bigW…
#44
ghuls
opened
1 week ago
0
Documentation on parameters to change to improve model
#43
lldelisle
opened
1 week ago
14
Update the batch_size in the test part
#42
lldelisle
closed
1 week ago
1
Update README.md
#41
nkempynck
closed
2 weeks ago
0
release 1.1.0
#40
LukasMahieu
closed
2 weeks ago
0
fix transferlearning by now specifying requested layer to freeze
#39
LukasMahieu
closed
2 weeks ago
0
add warning if model not compiled
#38
LukasMahieu
closed
2 weeks ago
0
No undocumented features check
#37
LukasMahieu
closed
2 weeks ago
0
add feature permute model and docs
#36
LukasMahieu
closed
2 weeks ago
0
Bugfix bigwigs import
#35
LukasMahieu
closed
2 weeks ago
0
Update docs, add checks for formatting/docs building, and refactor modisco and utils modules
#34
LukasMahieu
closed
2 weeks ago
0
small bug fixes
#33
nkempynck
closed
3 weeks ago
0
Tensorflow and torch tests
#32
LukasMahieu
closed
3 weeks ago
0
add seqlet coordinates to all patterns dict
#31
SeppeDeWinter
closed
3 weeks ago
0
tutorial notebook motif embedding example added
#30
nkempynck
closed
3 weeks ago
0
Enhancer design plotting
#29
erceksi
closed
2 weeks ago
2
updated pattern clustering plotting
#28
nkempynck
closed
3 weeks ago
0
make sure pattern always has ic!
#27
SeppeDeWinter
closed
3 weeks ago
0
Error after the first Epoch
#26
ChengxiangQiu
closed
3 weeks ago
2
Necessary bug fixes in pattern matching code
#25
nkempynck
closed
3 weeks ago
0
multiple modisco files per class
#24
SeppeDeWinter
closed
3 weeks ago
0
Remove scanpy dependency (not needed).
#23
SeppeDeWinter
closed
4 weeks ago
0
Add 2.2.1 ver req for modiscolite
#22
casblaauw
closed
3 weeks ago
0
Add function to calculate contribution scores on custom set of sequences, for tfmodisco.
#21
SeppeDeWinter
closed
3 weeks ago
0
fix region import ambiguous names
#20
camiel-m
closed
1 month ago
0
bugfix bed import chromosome names
#19
camiel-m
closed
1 month ago
0
testing bugfixes
#18
camiel-m
closed
1 month ago
0
get_embeddings based on layer name
#17
LukasMahieu
closed
1 month ago
0
Return figure after rendering modisco_results plot.
#16
SeppeDeWinter
closed
1 month ago
1
custom loss function enhancer design
#15
SeppeDeWinter
closed
4 weeks ago
4
improve correlation correlation speed
#14
SeppeDeWinter
closed
1 month ago
0
Add motifs db downloading function
#13
casblaauw
closed
2 months ago
1
Pass func argument to expected_integrated_grad function in _explainer_tf.py
#12
SeppeDeWinter
closed
2 months ago
0
Fix size of hot_encoding_table and one_hot_decoding_table.
#11
ghuls
closed
2 months ago
0
Remove regions out of bounds from matrix
#10
SeppeDeWinter
closed
3 months ago
1
After changing regions width, regions out of chromosome bounds are not removed from matrix.
#9
SeppeDeWinter
closed
3 months ago
0
Gpu opt
#8
LukasMahieu
closed
3 months ago
0
Gpu opt
#7
LukasMahieu
closed
3 months ago
0
Deeptopic LSTM model
#6
VKonstantakos
closed
3 months ago
3
Add example dataset loading
#5
casblaauw
closed
3 months ago
1
Add support for decoding one hot encoded sequence back to a DNA seque…
#4
ghuls
closed
4 months ago
0
Update code to new pybigtools 0.2.0 API.
#3
ghuls
closed
3 months ago
1
Tf modisco
#2
LukasMahieu
closed
4 months ago
0
Plotting + bugfixes + small features
#1
LukasMahieu
closed
4 months ago
0