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flatironinstitute
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deepblast
Neural Networks for Protein Sequence Alignment
BSD 3-Clause "New" or "Revised" License
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link for downloading deepblast checkpoints in wiki returns a 404
#164
aryankeluskar
closed
6 hours ago
1
Error While Downloading DeepBLAST Model and Database
#162
khatrics16
closed
3 months ago
1
Model download link failed
#161
yuanwenguang666
closed
3 months ago
2
Pretraind model download
#160
gbrsales
closed
5 months ago
7
Feasible approach to build a large database
#159
yzlwk
opened
6 months ago
1
Fixing CPU compatibility
#157
mortonjt
closed
6 months ago
0
TM-score calculation for DeepBlast
#156
zh-qifan
closed
7 months ago
4
SW_cuda modual
#155
Zhu-Siqi
opened
8 months ago
8
Unexpected keys in state_dict when I run this code on cpu
#154
liaojf24
closed
9 months ago
3
Questions about evaluation metrics for sequence alignment
#153
hughplay
closed
5 months ago
4
After entering the command line, the program keeps running without any result.
#152
Aurorajwy
closed
5 months ago
10
RuntimeError: The NVIDIA driver on your system is too old
#151
sevengo8378
closed
10 months ago
3
Where is the structure alignment output?
#150
echovv
closed
10 months ago
2
Deepblast model confusion
#149
wangy9711
closed
3 months ago
1
ImportError: cannot import name 'LightningAligner' from 'deepblast.trainer' for deepblast and AttributeError: 'tuple' object has no attribute 'strip' for tm-vec
#148
Zjianglin
closed
12 months ago
12
sw: updates regression tests to match bugfix from 81ac6e3
#147
blackwer
closed
1 year ago
1
Smith-waterman test broken
#146
mortonjt
closed
1 year ago
1
numba: fix deprecation problems and suppress performance warnings
#145
blackwer
closed
6 months ago
2
updates to load method
#144
mortonjt
closed
1 year ago
1
Running time for large query sequences
#143
Citugulia40
closed
1 year ago
1
Running time for searching query
#142
Citugulia40
closed
1 year ago
0
Encountering an Issue While Building a Queryable Protein Sequence Database
#141
pengjk689
opened
1 year ago
2
mat1 and mat2 must have the same dtype
#140
QUEST2179
opened
1 year ago
1
DeepBLAST issue with model load
#139
mortonjt
closed
1 year ago
3
cannot import name 'LightningAligner' from 'deepblast.trainer'
#138
meltzj
closed
1 year ago
2
Pass the device in load_model to Neural aligner
#137
benjamin-kroeger
opened
1 year ago
1
Consistent usage of 'cuda' or 'gpu'
#136
benjamin-kroeger
opened
1 year ago
0
Bump tornado from 6.2 to 6.3.2 in /ci
#135
dependabot[bot]
opened
1 year ago
0
Bump requests from 2.28.1 to 2.31.0 in /ci
#134
dependabot[bot]
opened
1 year ago
0
Bump mpmath from 1.2.1 to 1.3.0 in /ci
#133
dependabot[bot]
opened
1 year ago
0
fix typo when indexing into gap scores in forward pass
#132
fymue
closed
1 year ago
2
No 'LightningAligner' can be import
#131
Ravy-LFL
closed
1 year ago
7
Inference improvements
#130
mortonjt
opened
1 year ago
0
Fixing needleman-wunsch spelling. easier model loading
#129
mortonjt
closed
1 year ago
0
Version 1 update
#128
mortonjt
closed
1 year ago
0
Deprecated scripts
#127
mortonjt
opened
1 year ago
0
Notebook update
#125
mortonjt
closed
1 year ago
0
Updates to simulations
#124
mortonjt
closed
1 year ago
0
Bump protobuf from 3.20.1 to 3.20.2 in /ci
#123
dependabot[bot]
opened
1 year ago
0
Bump werkzeug from 2.2.2 to 2.2.3 in /ci
#122
dependabot[bot]
opened
1 year ago
0
Bump numpy from 1.21.6 to 1.22.0 in /ci
#121
dependabot[bot]
opened
1 year ago
0
Bump ipython from 8.7.0 to 8.10.0 in /ci
#120
dependabot[bot]
opened
1 year ago
0
Events files
#119
mortonjt
closed
1 year ago
0
Preprocessing steps
#118
mortonjt
closed
1 year ago
1
Updated metrics
#117
mortonjt
closed
1 year ago
1
Parsers
#116
mortonjt
closed
1 year ago
1
Adding option to run smith waterman
#115
mortonjt
closed
1 year ago
1
Smith waterman
#114
blackwer
closed
1 year ago
2
Last minute fixes to pdb metrics
#113
mortonjt
closed
1 year ago
0
DeepBLAST align method not working
#112
mortonjt
closed
1 year ago
2
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