MPRAsnakeflow

CytoTRACE -- computational method for predicting relative differentiation state of cells from single-cell RNA-seq data. Uses gene counts (number of detectably expressed genes per cell) as a robust pro

1 shared topic • 1 shared operation

DecontX — R/Bioconductor method in the celda package for estimating and removing ambient RNA contamination from droplet-based single-cell RNA-seq data. Uses a Bayesian Dirichlet mixture model over cel

1 shared topic • 1 shared operation

featureCounts — ultrafast read counting program for assigning aligned reads (SAM/BAM) to genomic features such as genes, exons, promoters, and genomic bins. Part of the Subread package. Supports singl

1 shared topic • 1 shared operation

Poetry is the Python dependency management and packaging tool for creating reproducible projects with pyproject.toml and poetry.lock. Use this skill for dependency resolution, virtual environment isol

1 shared topic • 1 shared operation

ScreenProcessing — Python pipeline for analyzing pooled genetic screens (CRISPRi/CRISPRa). Converts raw FASTQ sequencing files into library counts using fastqgz_to_counts.py, then generates sgRNA phen

1 shared topic • 1 shared operation