epigen / dea_limma
A Snakemake workflow and MrBiomics module for performing and visualizing differential (expression) analyses (DEA) on NGS data powered by the R package limma.
☆24Updated last week
Alternatives and similar repositories for dea_limma:
Users that are interested in dea_limma are comparing it to the libraries listed below
- A Snakemake workflow and MrBiomics module for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq re…☆15Updated last month
- A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices re…☆14Updated last month
- A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits …☆18Updated last month
- A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered…☆17Updated last month
- A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, p…☆32Updated last month
- A Snakemake workflow and MrBiomics module for easy visualization of genome browser tracks of aligned BAM files (e.g., RNA-seq, ATAC-seq, …☆19Updated last month
- A general purpose Snakemake workflow and MrBiomics module to perform unsupervised analyses (dimensionality reduction & cluster analysis) …☆24Updated last month
- Ultimate ATAC-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.☆49Updated last month
- MrBiomics: Modules & Recipes augment Bioinformatics for Multi-Omics Analyses☆43Updated last month
- A toolkit for NGS analysis with Python☆14Updated 2 years ago
- Functional Inference of Gene Regulation☆39Updated 6 months ago
- A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.☆30Updated 2 years ago
- ☆34Updated 4 months ago
- BLADE: Bayesian Log-normAl DEconvolution for enhanced in silico microdissection of bulk gene expression data☆27Updated 9 months ago
- R implementation of GLIPH (Grouping of Lymphocyte Interactions by Paratope Hotspots), an algorithm developed by Glanville et al to identi…☆19Updated 2 years ago
- Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020☆16Updated last year
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆25Updated 3 months ago
- Single cell RNA-seq analysis bundle☆34Updated 5 years ago
- ☆47Updated 4 months ago
- Scripts to reproduce the analysis of the MAESTER paper (https://www.nature.com/articles/s41587-022-01210-8).☆12Updated 8 months ago
- Reusable tools for working with next-generation sequencing (NGS) data☆11Updated 3 months ago
- MERCI for tracing of mitochondrion transfer between single cancer and T cells☆21Updated 8 months ago
- mutation(barcode) caller for 10x single cell data☆44Updated 4 years ago
- ☆25Updated last week
- Mapping pipeline for snmC-seq based technologies.☆17Updated last year
- interactive visualization of single-cell transcriptomes☆11Updated last year
- Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples withi…☆41Updated last year
- Publication Page for Satpathy*, Granja* et al 2019☆92Updated 4 years ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆59Updated 2 weeks ago
- ☆25Updated 3 weeks ago