https://github.com/epigen/mixscape_seurat
A Snakemake workflow for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq read-out (scCRISPR-seq) powered by the R package Seurat's method Mixscape.
bioinformatics
biomedical-data-science
perturbation-analysis
sccrispr-seq
scrna-seq
single-cell
snakemake
snrna-seq
visualization
workflow
Added: over 1 year ago - Last Synced: about 1 year ago
- Created: April 14, 2022
https://github.com/epigen/dea_seurat
A Snakemake workflow for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered by the R package Seurat.
bioinformatics
biomedical-data-science
differential-expression-analysis
scrna-seq
single-cell
snakemake
snrna-seq
visualization
volcano-plot
workflow
Added: over 1 year ago - Last Synced: about 1 year ago
- Created: April 20, 2022
https://github.com/epigen/dea_limma
A Snakemake workflow for performing and visualizing differential expression analyses (DEA) on NGS data powered by the R package limma.
atac-seq
bioinformatics
biomedical-data-science
chip-seq
differential-expression-analysis
limma
limma-trend
limma-voom
r
rna-seq
scrna-seq
snakemake
statistics
visualization
volcano-plot
workflow
Added: over 1 year ago - Last Synced: about 1 year ago
- Created: August 12, 2022
https://github.com/epigen/spilterlize_integrate
A Snakemake workflow to split, filter, normalize, integrate and select highly variable features of count matrices resulting from experiments with sequencing readout (e.g., RNA-seq, ATAC-seq, ChIP-seq, Methyl-seq, miRNA-seq,...) including diagnostic visualizations.
atac-seq
batch-effect
bioinformatics
biomedical-data-science
chip-seq
count-matrix
dimensionality-reduction
integration
ngs
normalization
pipeline
rna-seq
snakemake
visualization
workflow
Added: over 1 year ago - Last Synced: about 1 year ago
- Created: June 28, 2023