bioinfocz / scdrake
A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like pipeline toolkit for the R language.
☆10Updated 5 months ago
Alternatives and similar repositories for scdrake:
Users that are interested in scdrake are comparing it to the libraries listed below
- Using TCR and expression for sequence embedding☆52Updated last month
- A unified interface to spatial transcriptomics deconvolution tools☆40Updated last week
- R package for the analysis of single-cell immune repertoires☆42Updated last month
- ☆61Updated 8 months ago
- scGSVA: Perform GSVA for single cell RNA seq☆55Updated 4 months ago
- ☆54Updated last year
- Gene group activity utility functions for Scanpy☆68Updated 2 months ago
- R package for Pathway RespOnsive GENe activity inference☆100Updated 2 years ago
- This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL☆55Updated last year
- Enrichment Networks for Pathway Enrichment Analysis☆42Updated last year
- Multi-omics profiling of peripheral immune system response to SARS-CoV-2 infection☆40Updated 3 years ago
- Robust, multivariate, multi-sample, multi-celltype QC for single cell RNA-seq data☆36Updated 2 years ago
- Generate masks for scRNA-seq clusters on t-SNE or UMAP plots☆25Updated 2 months ago
- Unified access to several second-generation deconvolution methods☆65Updated 3 weeks ago
- Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.☆90Updated 2 months ago
- ☆78Updated last year
- Code repository for the Tumor Immune Cell Atlas (TICA) project☆62Updated 2 years ago
- Framework for sensitive DE testing (using neighbourhoods)☆64Updated 7 months ago
- Cell-type Relationship Analysis Workflow Done Across Distances☆31Updated 2 weeks ago
- ConsensusTME Gene Sets and R Script☆39Updated 9 months ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆73Updated 6 months ago
- Inference of TCR motifs☆29Updated last month
- SciLifeLab SIB Summer School for Advanced topics in Single Cell Omics. Site: https://nbisweden.github.io/single-cell_sib_scilifelab_2021/