flatironinstitute/deepblast issues and pull requests

#51 - Multitask loss

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#50 - Non saturating loss

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#50 - Non saturating loss

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#49 - WIP : Differientiable Viterbi Algorithm

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#49 - WIP : Differientiable Viterbi Algorithm

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#48 - pinning memory

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 2 comments

#48 - pinning memory

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 2 comments

#47 - Sequences don't quite look right

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#47 - Sequences don't quite look right

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#46 - Multi-node GPU support is still outstanding

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#46 - Multi-node GPU support is still outstanding

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#45 - flake8

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#45 - flake8

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#44 - Enabling multi-gpu support

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#44 - Enabling multi-gpu support

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#43 - Add filtering parameters to command line

Issue - State: open - Opened by mortonjt over 4 years ago

#43 - Add filtering parameters to command line

Issue - State: open - Opened by mortonjt over 4 years ago

#42 - GPU Memory errors

Issue - State: closed - Opened by mortonjt over 4 years ago - 3 comments

#42 - GPU Memory errors

Issue - State: closed - Opened by mortonjt over 4 years ago - 3 comments

#41 - Torch all gpu

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#40 - Mysterious bug in states2alignment

Issue - State: closed - Opened by mortonjt over 4 years ago
Labels: bug, help wanted, good first issue

#39 - Move to all torch nw_cuda implementation

Pull Request - State: closed - Opened by blackwer over 4 years ago - 5 comments

#38 - Enabling full gpu run

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 2 comments

#37 - Make GPU + CPU versions compatible

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment
Labels: good first issue

#36 - Dimensions need untangling

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment
Labels: bug

#35 - Computing match scores

Issue - State: closed - Opened by mortonjt over 4 years ago
Labels: enhancement, help wanted

#34 - More language models

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment
Labels: help wanted, good first issue

#33 - Loss functions

Issue - State: open - Opened by mortonjt over 4 years ago
Labels: help wanted, good first issue

#32 - Length bias

Issue - State: open - Opened by mortonjt over 4 years ago
Labels: help wanted

#31 - Computing gap scores

Issue - State: closed - Opened by mortonjt over 4 years ago
Labels: help wanted

#30 - Null models

Issue - State: open - Opened by mortonjt over 4 years ago
Labels: enhancement, help wanted

#29 - Baseline models

Issue - State: closed - Opened by mortonjt over 4 years ago

#28 - Simulations

Issue - State: closed - Opened by mortonjt over 4 years ago

#27 - WIP: Simulate

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 2 comments

#26 - Needleman-Wunsch CUDA implementation

Pull Request - State: closed - Opened by blackwer over 4 years ago - 4 comments

#25 - Numba speed ups

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#24 - Masternw tests

Pull Request - State: closed - Opened by blackwer over 4 years ago - 3 comments

#23 - Needleman-wunsch tests

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#22 - Enable local alignments

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment
Labels: help wanted, good first issue

#21 - Tm align dataloaders

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#20 - Refactor global constants

Issue - State: closed - Opened by mortonjt over 4 years ago

#19 - TM align

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#18 - WIP: C code for Needleman Wunsch

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 3 comments

#17 - Add support for asv

Issue - State: open - Opened by mortonjt over 4 years ago

#16 - Travis

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#15 - Adding in travis support

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#14 - WIP: Enabling batching in nw

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 3 comments

#13 - Add travis

Issue - State: closed - Opened by mortonjt over 4 years ago

#12 - Adding prototype for pytorch lightning

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#11 - WIP: Adding prototype of alignment model

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#10 - LSTM

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#9 - Cross validation metrics

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#8 - Dataloader

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#7 - Test cases

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#6 - Port language models

Issue - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#5 - Confirmed that needleman wunsch is correctly returning states

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#4 - Needleman Wunsch

Pull Request - State: closed - Opened by mortonjt over 4 years ago - 1 comment

#3 - Adding in packing / unpacking strategy

Pull Request - State: closed - Opened by mortonjt over 4 years ago

#2 - Speed up Differentiating Dynamic programming algorithm

Issue - State: closed - Opened by mortonjt over 4 years ago - 2 comments

#1 - Differentiable Viterbi algorithm

Issue - State: open - Opened by mortonjt over 4 years ago

GitHub / flatironinstitute/deepblast issues and pull requests