Pinned Repositories
2023-prot-impute-benchmark
The GitHub repository accompanying our 2023 quantitative proteomics imputation methods benchmarking study
Carafe
High quality in silico spectral library generation for data-independent acquisition proteomics
casanovo
De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model
cascadia
Transformer deep learning model for de novo sequencing of data-independent acquisition mass spectrometry data
CellCycleNet
Predicting cell cycle stage from 3D single-cell nuclear-stained images
crema
Confidence Estimation for Mass Spectrometry Proteomics
FDRBench
Estimation of false discovery proportion for mass spectrometry proteomics data using entrapment
Pepper
Peptide coefficient predictor
Polarbear
Polarbear translates between different single-cell data modalities
Sceptic
Pseudotime analysis for time-series single-cell sequencing and imaging data
Noble Lab Department of Genome Sciences UW's Repositories
Noble-Lab/casanovo
De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model
Noble-Lab/crema
Confidence Estimation for Mass Spectrometry Proteomics
Noble-Lab/Carafe
High quality in silico spectral library generation for data-independent acquisition proteomics
Noble-Lab/Pepper
Peptide coefficient predictor
Noble-Lab/2023-prot-impute-benchmark
The GitHub repository accompanying our 2023 quantitative proteomics imputation methods benchmarking study
Noble-Lab/cascadia
Transformer deep learning model for de novo sequencing of data-independent acquisition mass spectrometry data
Noble-Lab/FDRBench
Estimation of false discovery proportion for mass spectrometry proteomics data using entrapment
Noble-Lab/Polarbear
Polarbear translates between different single-cell data modalities
Noble-Lab/Sceptic
Pseudotime analysis for time-series single-cell sequencing and imaging data
Noble-Lab/CellCycleNet
Predicting cell cycle stage from 3D single-cell nuclear-stained images
Noble-Lab/depthcharge
A deep learning toolkit for mass spectrometry
Noble-Lab/edison
Compute scaffolding accuracy by its edit distance to a reference genome
Noble-Lab/trans-C
Identifying sets of loci that interact strongly in trans
Noble-Lab/casanovo_asms2023
ASMS 2023 De Novo Peptide Sequencing with Casanovo Workshop Materials
Noble-Lab/hic_scaffolder_benchmarks
A benchmarking study exploring the accuracy of popular Hi-C scaffolders.
Noble-Lab/Icebear
Noble-Lab/MSFactor
Impute mass spectrometry data using non-negative matrix factorization
Noble-Lab/nih-latex
Template for producing NIH grant proposals using latex
Noble-Lab/python-style-demo
A small repository that contains some advice for styling and using Python code.
Noble-Lab/subset-neighbor-search
Subset-neighbor-search is a method for FDR control from tandem mass spectrometry data, applicable when only a subset of peptides or proteins are of interest
Noble-Lab/twinc
TwinC: Twin CNN model for 3D genome folding
Noble-Lab/2022_min_HAB
Noble-Lab/ALSO
Noble-Lab/lda_matrix_prior
Noble-Lab/lupine
Mass spectrometry proteomics imputation with a multilayer perceptron
Noble-Lab/multi-species-benchmark
Noble-Lab/Sunbear
single cell multimodal/multicondition temporal model
Noble-Lab/synmatch
Synmatch - Linking cells across single-cell modalities by synergistic matching of neighborhood structure
Noble-Lab/2024_proteomics_impute
Code used to generate figures in our 2024 manuscript on mass spectrometry proteomics imputation
Noble-Lab/ACCOST