Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / NVIDIA/VariantWorks issues and pull requests

#50 - [sdk] add copyright header to src files

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

#49 - [vcf result writer] Add VCF result writer

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

#49 - [vcf result writer] Add VCF result writer

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

#48 - [label_encoder] add decoding function

Issue - State: closed - Opened by tijyojwad over 4 years ago - 1 comment
Labels: enhancement

#48 - [label_encoder] add decoding function

Issue - State: closed - Opened by tijyojwad over 4 years ago - 1 comment
Labels: enhancement

#47 - [pileup_encoder] add ref and allele encoding

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

#47 - [pileup_encoder] add ref and allele encoding

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

#46 - [license] add Apache 2.0 license

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

#46 - [license] add Apache 2.0 license

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

#45 - [types] Convert namedtuple into a dataclass

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

#45 - [types] Convert namedtuple into a dataclass

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

#44 - [types] convert variant namedtuple to dataclass

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

#44 - [types] convert variant namedtuple to dataclass

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

#43 - [scaling] test training and inference pipeline for larger datasets

Issue - State: closed - Opened by tijyojwad over 4 years ago - 1 comment
Labels: documentation

#43 - [scaling] test training and inference pipeline for larger datasets

Issue - State: closed - Opened by tijyojwad over 4 years ago - 1 comment
Labels: documentation

#42 - [label_loader] Remove current label filtering framework

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

#42 - [label_loader] Remove current label filtering framework

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

#41 - [tests] remove test_simple_vc test

Issue - State: closed - Opened by tijyojwad over 4 years ago
Labels: enhancement

#41 - [tests] remove test_simple_vc test

Issue - State: closed - Opened by tijyojwad over 4 years ago
Labels: enhancement

#40 - [label_loader] remove filtering from 0.1.0 release

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

#40 - [label_loader] remove filtering from 0.1.0 release

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

#39 - [tests] add model checkpointing and inference run

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

#39 - [tests] add model checkpointing and inference run

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

#38 - [test] adding pre push hook with unit test

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

#38 - [test] adding pre push hook with unit test

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

#36 - [pileup encoder] added layer enum to pileup encoder

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

#36 - [pileup encoder] added layer enum to pileup encoder

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

#35 - [inference] add inference DAG

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

#35 - [inference] add inference DAG

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

#34 - [encoder] label encoding for zygosoity prediction

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

#34 - [encoder] label encoding for zygosoity prediction

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

#33 - [confing] add configuration management for training/inference

Issue - State: open - Opened by tijyojwad over 4 years ago
Labels: enhancement

#33 - [confing] add configuration management for training/inference

Issue - State: open - Opened by tijyojwad over 4 years ago
Labels: enhancement

#32 - [trainer] serialize trained models

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

#31 - [dataset] only train for variant zygosity

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

#31 - [dataset] only train for variant zygosity

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

#30 - [encoder] remove unnecessary abstract methods

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

#30 - [encoder] remove unnecessary abstract methods

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

#29 - [encoder] remove depth, height and width as abstractmethods

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

#29 - [encoder] remove depth, height and width as abstractmethods

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

#28 - [sdk] linting and documentation check

Issue - State: closed - Opened by tijyojwad over 4 years ago
Labels: documentation

#28 - [sdk] linting and documentation check

Issue - State: closed - Opened by tijyojwad over 4 years ago
Labels: documentation

#27 - [CI] add CI support for repo

Issue - State: closed - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement

#27 - [CI] add CI support for repo

Issue - State: closed - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement

#25 - [visualizer] add visualization module for encodings

Issue - State: closed - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement

#25 - [visualizer] add visualization module for encodings

Issue - State: closed - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement

#24 - [trainer] add wrapper function for training

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

#24 - [trainer] add wrapper function for training

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

#23 - [label_loader] add support for loading multiple VCF/BAM files

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

#23 - [label_loader] add support for loading multiple VCF/BAM files

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

#22 - [dataset] remove variant allele output

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

#22 - [dataset] remove variant allele output

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

#21 - [encoding] add reference and variant proposal encoding layer

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

#21 - [encoding] add reference and variant proposal encoding layer

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

#20 - [encoding] add support to encode labels

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

#20 - [encoding] add support to encode labels

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

#19 - [encoder] checking available channels for encoding

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

#19 - [encoder] checking available channels for encoding

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

#18 - [label_loader] vcf and bam file input arguments

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

#18 - [label_loader] vcf and bam file input arguments

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

#17 - [encoder] add encoder layer

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

#17 - [encoder] add encoder layer

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

#16 - [label_loader] improve filtering framework

Issue - State: open - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement, I/O

#16 - [label_loader] improve filtering framework

Issue - State: open - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement, I/O

#15 - [label_loader] add label loader classes

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

#15 - [label_loader] add label loader classes

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

#14 - [encoder] make encodings configurable

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

#13 - [encoder] create neural module for encoder

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

#12 - [nemo] update version to 0.10.1

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

#11 - [dataset] create abstract class for pileup encoder

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

#10 - [dataset] Abstract label generator into separate API

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

#8 - [dataset] add pyVCF based label loading

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

#7 - [vw] generate pileup from BAM file

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

#6 - [vw] Support creating an arbitrary number of channels in pileup generator

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

#5 - [vw] Add support for multiple BAM files in data loading

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

#4 - [vw] basic blueprint for SNP variant caller using NeMo

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

#3 - [vw] Output predictions into VCF file

Issue - State: closed - Opened by tijyojwad over 4 years ago - 2 comments
Labels: enhancement

#2 - [vw] Load training/eval/test dataset from VCF files

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

#1 - [vw] Use pySAM correctly in pileup_generator

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