Code for Zhang, et al, Genome Medicine, 2021. Cross-disease tissue data integration on single-cell transcriptomics
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Updated
Jul 2, 2022 - Jupyter Notebook
Code for Zhang, et al, Genome Medicine, 2021. Cross-disease tissue data integration on single-cell transcriptomics
GenePattern module which implements the batch correction algorithm within Seurat.
Wrapper Script for Harmony designed to work with GenePattern Module Integrator
Manipulate scRNA-seq data with GSASD
Detecting and dissecting anomalous anatomic regions in spatial transcriptomics with STANDS
Confounded Domain Adapter
Scripts from Summer 2020 NASA GeneLab Dataset Correction project.
A similarity-assisted variational autoencoder (saVAE) is a new method that adopts similarity information in the framework of the VAE.
An R package for the alignment and scaling of LC-MS metabolomics data
Detecting and subtyping anomalous single cells with M2ASDA
Comparison of batch correction methods for scRNA-seq data - basically a clone of BatchBench
Methylation array preprocessing.
Batman: Batch effect correction via minimum weight MAtchiNg
An R tool to detect and correct batch-effects in gene-expression data (Microarray and bulk-RNAseq))
A comparison of data integration methods for single-cell RNA sequencing of cancer samples
Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)
A Python tool for performing downstream analysis on Single-Cell RNA-seq datasets
MAAPster is a comprehensive tool to perform transcriptome analysis of human or mouse Affymetrix gene expression data
Clone of the Bioconductor repository for the batchelor package.
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