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brendanofallon
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jovian
Detecting variants in NGS short read data by sequence-to-sequence modeling
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Fix train.py imports
#43
jelber2
closed
5 months ago
0
Training a long-read model as if the alignments were short reads
#42
jelber2
closed
4 days ago
15
Change python to python3 in setup.py?
#41
jelber2
closed
6 months ago
2
Possible for long reads or tool to shred long alignments to non-overlapping records?
#40
jelber2
closed
6 months ago
13
Added short variant context section and plot
#39
durtschi
closed
5 months ago
1
Add genotype phasing description and plot and csv
#38
abolia
closed
2 years ago
0
Gnomad feat
#37
brendanofallon
closed
2 years ago
0
Update pip requirements.txt
#36
Luobiny
closed
2 years ago
0
BDA-1367 parallelize calling
#35
Luobiny
closed
2 years ago
2
Installable
#34
Luobiny
closed
2 years ago
2
Add classifier to calling
#33
durtschi
closed
2 years ago
0
Triggers
#32
brendanofallon
closed
2 years ago
0
Save and load models with torchscript
#31
brendanofallon
closed
2 years ago
0
Improve vcf phasing
#30
durtschi
closed
2 years ago
0
Log indel ppa
#29
brendanofallon
closed
2 years ago
0
Call bam to vcf
#28
durtschi
closed
2 years ago
3
Call vars sequential
#27
brendanofallon
closed
2 years ago
0
Two-haplotype version
#26
brendanofallon
closed
2 years ago
0
Set self.datadir to be None if datadir is None in PregenLoader
#25
Luobiny
closed
2 years ago
0
set wandb.init dir to working dir
#24
durtschi
closed
2 years ago
0
Add fraction to augment
#23
abolia
closed
2 years ago
0
Bda 1216 improve logging
#22
durtschi
closed
2 years ago
0
Sw trim width
#21
brendanofallon
closed
2 years ago
0
Aln sw loss
#20
brendanofallon
closed
2 years ago
0
Val loader
#19
brendanofallon
closed
2 years ago
0
Updated calc val accuracy function
#18
abolia
closed
2 years ago
5
Per-class vals per class
#17
brendanofallon
closed
2 years ago
0
Fix train accuracy calc
#16
brendanofallon
closed
2 years ago
0
Gelu 2d posencode
#15
brendanofallon
closed
2 years ago
0
Downsampling loader
#14
abolia
closed
2 years ago
0
Shuffling loader
#13
abolia
closed
2 years ago
0
batch_first=True for encoder, use GeLU activations
#12
brendanofallon
closed
2 years ago
0
Transforming loaders
#11
brendanofallon
closed
2 years ago
0
Altmask feats in mainmodel
#10
brendanofallon
closed
2 years ago
1
Cache compressed samples
#9
brendanofallon
closed
2 years ago
2
Data parallel
#8
Luobiny
closed
2 years ago
0
BDA-1188_lookup_table
#7
Luobiny
closed
2 years ago
3
Batch size
#6
Luobiny
closed
2 years ago
2
One-hot for ins vs del cigops
#5
brendanofallon
closed
2 years ago
0
Add --vals-per-class command line argument to 'pregen'
#4
Luobiny
closed
2 years ago
0
Fix the device issue while handling checkpoints in train.py
#3
Luobiny
closed
2 years ago
0
Add log messages to display the number of variants for each variant class when loading data from CSV file.
#2
Luobiny
closed
2 years ago
0
Fix encode chunks
#1
Luobiny
closed
2 years ago
0