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amlresistancenetworks

beatamlpilotproteomics

Analysis of BEAT AML patient proteomics data

beatamlproteomics

Analysis of the 210 patient cohort processed by the OHSU/PNNL PTRC

cytokinedrugresistance

Studying the impacts of cytokines on drug resistance in AML

dl-batch-correction

dlkcat

Deep learning and Bayesian approach applied to enzyme turnover number for the improvement of enzyme-constrained genome-scale metabolic models (ecGEMs) reconstruction

earlylateamlresistance

Investigations into differences between early and late resistance in AML patients

entropybatchcorrection

Standalone of the entropy-based batch correction found in DL-Batch-Correction.

exp18_cell_lines

exp20_aso_dataset

kaiko-denovo

deep learning-based de novo peptide sequencing tool

kaiko_metaproteome

Generates sample-specific protein databases from raw peptide spectra

kaiko_pipeline

leapr

msnid

utilities for handling MS/MS proteomic identifications

msnset.utils

custom wrappers of frequently used R code

nmf

NMF: A Flexible R package for Nonnegative Matrix Factorization

omicsintegrator

This repository is the working directory for the Garnet-Forest bundle of python scripts for analyzing diverse forms of 'omic' data in a network context.

p3-template

plexedpiper

proteinlm

Protein Language Model

proteomicstumordeconv

A suite of scientific workflows to assess metrics to compare efficacy of protein-based tumor deconvolution algorithms.