Nextflow

Benchmark and compare bioinformatics tools for a given analysis task using published benchmark data (accuracy, runtime, memory), PrecisionFDA and CAMI challenge results, bc7score community metrics, an

3 shared topics • 1 shared operation

Use when working with tascCODA for tree-aggregated compositional analysis of high-throughput sequencing data, especially single-cell RNA-seq, microbiome, or amplicon count tables with a lineage or tax

3 shared topics • 1 shared operation

cellSNP-lite — fast C-based tool for genotyping single cells and bulk samples at known or de-novo SNP sites from BAM/SAM files. Generates sparse genotype matrices (AD/DP/OTH counts) in VCF/BCF format

2 shared topics • 2 shared operations

FLAMES — Full-Length Analysis of Mutations and Splicing for bulk and single-cell long-read RNA-seq data. R/Bioconductor pipeline for barcode demultiplexing, isoform discovery, transcript quantificatio

2 shared topics • 2 shared operations

Vireo (vireoSNP) is a Bayesian variational inference tool for donor demultiplexing in pooled single-cell RNA-seq and single-cell ATAC-seq experiments. It assigns cells to donors using SNP genotype inf

2 shared topics • 2 shared operations