Loading homepage
SpadeR (Species-richness Prediction And Diversity Estimation in R) estimates species richness and diversity indices from abundance or incidence-frequency data. Implements Chao1, ACE, jackknife, and bo
Use with AI
Install the MCP server or CLI to instantly fetch SpadeR documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/spader
Anvi'o — integrated analysis and visualization platform for 'omics data. Supports metagenomics (MAG binning, refinement, read recruitment), pangenomics (gene cluster analysis, ANI computation), phylog
2 shared topics • 1 shared operation
CNVkit -- Python toolkit for detecting copy number variants (CNVs) from targeted DNA sequencing data (hybrid capture, amplicon) and whole-genome sequencing (WGS). Leverages both on-target and off-targ
2 shared topics • 1 shared operation
CRISPResso2 — Python tool for quantifying CRISPR genome editing outcomes from amplicon sequencing data. Analyzes NHEJ (insertions, deletions), HDR, and mixed repair outcomes. Supports single amplicon
2 shared topics • 1 shared operation
ggtree — R/Bioconductor package for phylogenetic tree visualization and annotation using ggplot2 grammar. Supports Newick, Nexus, NHX, Jplace, and BEAST tree formats. Enables layer-based annotation wi
2 shared topics • 1 shared operation
Import, plot, and analyze bathymetric and topographic data in R. The `marmap` package provides helpers to query ETOPO bathymetry from NOAA, manipulate `bathy` grid objects, draw 2D and 3D seafloor map
2 shared topics • 1 shared operation