The Wayback Machine - https://web.archive.org/web/20220516031548/https://github.com/topics/multi-omics

#

multi-omics

Here are 54 public repositories matching this topic...

MOFA2

bioFAM / MOFA2

Multi-Omics Factor Analysis

factor-analysis multi-omics mofa

Updated Apr 29, 2022
R

scverse / muon

Open

Plotting function should document parameters better

gtca commented Feb 16, 2022

As discussed in #49, documentation should be more clear that mu.pl.* support arguments from corresponding sc.pl.* functions.

Read more

enhancement good first issue

BIMSBbioinfo / maui

Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit

bioinformatics deep-learning cancer-genomics autoencoder multi-omics latent-factor-model

Updated Apr 9, 2021
Jupyter Notebook

scverse / mudata

Multimodal Data (.h5mu) implementation for Python

genomics muon data-analysis multi-omics anndata multimodal-omics-analysis mudata scverse

Updated May 11, 2022
Python

biobakery / melonnpan

Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles

workflow machine-learning tools public metagenomics bioconductor microbial-communities metabolomics microbiome multi-omics relative-abundances biobakery metabolite-prediction mallick metabolite-compounds

Updated Feb 18, 2022
R

wukevin / babel

Deep learning model for single-cell inference of multi-omic profiles from a single input modality.

deep-neural-networks scrna-seq single-cell multi-omics scatac-seq

Updated Jan 11, 2022
Jupyter Notebook

zhangxiaoyu11 / OmiEmbed

Multi-task deep learning framework for multi-omics data analysis

deep-learning cancer multi-task-learning multi-omics

Updated May 5, 2022
Python

selbouhaddani / OmicsPLS

R package for High dimensional data analysis and integration with O2PLS!

bioinformatics biostatistics pca data-integration omics principal-component-analysis latent-variable-models partial-least-squares-regression pls multi-omics

Updated Apr 22, 2022
R

BioMeCIS-Lab / OpenOmics

A bioinformatics API and web-app to integrate multi-omics datasets & interface with public databases.

python genomics data-integration data-manipulation multi-omics

Updated May 5, 2022
Python

krassowski / multi-omics-state-of-the-field

Analyses for "State of the field in multi-omics research: from computational needs to data mining and sharing"

omics omics-data-integration multi-omics binder-ready papers-with-code integrative-omics

Updated Apr 11, 2021
Jupyter Notebook

epruesse / ymp

Flexible omics pipeline

bioinformatics rna-seq snakemake pipeline metagenomics extensible ymp conda-environment multi-omics omics-pipeline

Updated Mar 28, 2022
Python

bacnet

becavin-lab / bacnet

BACNET is a Java based platform to develop website for multi-omics analysis

website bioinformatics genomics data-visualization proteomics transcriptomics bacnet multi-omics listeria

Updated Feb 24, 2022
Java

abodein / timeOmics

Time-Course Multi-Omics data integration

time-series integration cluster multi-omics

Updated Mar 1, 2022
R

ashleymaeconard / TIMEOR

TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R

website r time-series analysis transcription-factor multi-omics rshinyapp gene-regulatory-networks factor-binding

Updated Feb 22, 2022
R

krassowski / drug-disease-profile-matching

Multi-omics disease sub-type specific drug repositioning aided with expression signatures from ConnectivityMap

drug-discovery lincs l1000 drug-repurposing gct stratification multi-omics

Updated Mar 7, 2020
Jupyter Notebook

jguhlin / ODG

ODG: Omics Database Generator - Integration toolkit for -omics data

bioinformatics database genomics graph-database genome-annotation database-generator multi-omics omics-database-generator

Updated Nov 22, 2018
Clojure

pievos101 / HC-fused

A hierarchical clustering and data fusion approach for disease subtype discovery

clustering integrative-analysis data-fusion multi-omics

Updated Jan 12, 2022
R

Shamir-Lab / MONET

MONET

graph-algorithms clustering multi-omics

Updated Sep 4, 2020
R

scverse / Muon.jl

Open

AnnData functions?

1

zhanglab2008 commented Jul 20, 2021

Does Muon support the functions from the original python AnnData? For example: adata.var_names_make_unique()?
Thanks for developing this package!

Read more

enhancement good first issue

garimasingh128 / Ovarian-Cancer-Subtypes-Identification

🧠Deep Learning-based✔️ Ovarian Cancer🙅🏻‍♀️ Subtypes Identification using Multi-Omics Data✅

deep-learning ovarian-cancer multi-omics biodata biodatamining

Updated Nov 10, 2020
Jupyter Notebook

acabassi / klic

R package for KLIC: Kernel Learning Integrative Clustering

genomics clustering kernel-methods cluster-analysis multi-omics coca integrative-clustering

Updated Aug 3, 2020
R

soumitag / multiSLIDE

Multi-omics Systems-Level Interactive Data Exploration (multiSLIDE)

visualization clustering heatmap omics protein-protein-interaction transcriptional-regulatory-network multi-omics

Updated Apr 29, 2022
Java

glasgowcompbio / pyMultiOmics

Open

Add unit tests

joewandy commented Apr 29, 2021

And also some form of CI

Read more

enhancement good first issue

Open

Remote APIs

2

pievos101 / GNN-SubNet

GNN-SubNet: Disease Subnetwork Detection with Explainable Graph Neural Networks

disease-networks multi-omics explainable-ai graph-neural-networks

Updated May 11, 2022
Python

gu-yaowen / MODDA

MODDA: a drug repositioning method based on a large-scale multi-omics heterogeneous network

attention-mechanism multi-omics heterogeneous-graph-neural-network drug-repositioning drug-disease-associations

Updated Mar 31, 2022
Python

guokai8 / o2plsda

Omics data integration with o2plsda

integration omics multi-omics o2pls plsda

Updated Mar 2, 2022
R

scverse / muon-tutorials

Tutorials for multimodal omics data analysis

muon single-cell multi-omics mudata scverse

Updated Feb 23, 2022
Jupyter Notebook

PMBio / MuDataSeurat

.h5mu files interface for Seurat

scrna-seq multi-omics seurat anndata mudata multimodal-omics

Updated Mar 30, 2022
R

nf-core / hicar

Pipeline for HiCAR data, a robust and sensitive multi-omic co-assay for simultaneous measurement of transcriptome, chromatin accessibility and cis-regulatory chromatin contacts.

workflow pipeline nextflow atac-seq transcriptome hic multi-omics nf-core atac hicar

Updated May 3, 2022
Nextflow

acabassi / coca

R package for COCA: Cluster-of-Clusters Analysis

genomics clustering cluster-analysis multi-omics coca cluster-of-clusters integrative-clustering clusters-analysis

Updated Jul 8, 2020
R

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