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IDR (Irreproducible Discovery Rate) — statistical framework for assessing and controlling reproducibility of high-throughput sequencing experiments across biological replicates. Fits a copula mixture
Use with AI
Install the MCP server or CLI to instantly fetch IDR documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/idr
Bracken (Bayesian Reestimation of Abundance with KrakEN) — statistical method for computing species-level abundance estimates from Kraken/Kraken2/KrakenUniq taxonomic classifications. Redistributes re
2 shared topics • 1 shared operation
MACS2 (Model-based Analysis of ChIP-Seq) — the standard peak caller for ChIP-seq and ATAC-seq experiments. Identifies transcription factor binding sites (narrow peaks), histone modification domains (b
2 shared topics • 1 shared operation
NanoPlot — visualization and quality-control tool for Oxford Nanopore long-read sequencing data. Generates read length histograms, quality distribution plots, cumulative yield curves, and alignment id
2 shared topics • 1 shared operation
PRINSEQ++ — high-performance C++ tool for quality control and preprocessing of FASTQ sequencing reads. Filters and trims reads by quality score, length, GC content, sequence complexity (DUST/entropy),
2 shared topics • 1 shared operation
RASQUAL (Robust Allele Specific QUantification and quality controL) — joint QTL mapping tool that integrates total read counts and allele-specific reads for cis-regulatory variant discovery. Detects i
2 shared topics • 1 shared operation