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Ensembl Regulation (ensembl-funcgen) is the EMBL-EBI framework for annotating functional regulatory genomic elements including regulatory features, enhancers, promoters, transcription factor binding s
Use with AI
Install the MCP server or CLI to instantly fetch Ensembl Regulation documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/ensembl-regulation
MACS2/MACS3 — Model-based Analysis of ChIP-Seq for identifying transcription factor binding sites and histone modification enrichment from ChIP-seq, ATAC-seq, and CUT&Tag data. Provides peak calling (
2 shared topics
MEME Suite — motif-based sequence analysis toolkit for de novo motif discovery (MEME, STREME), motif enrichment testing (AME, SEA, CentriMo), motif scanning (FIMO, MAST, MCAST), motif comparison (Tomt
2 shared topics
MOABS (Model Based Analysis of Bisulfite Sequencing) — epigenomics toolkit for DNA methylation calling and differential methylation analysis from WGBS and RRBS experiments. Core tools: mcall (CpG meth
2 shared topics
TCGAbiolinks for searching, downloading, and analyzing cancer genomics data from the NCI Genomic Data Commons (GDC). Routes tasks for GDCquery/GDCdownload, data preparation with GDCprepare, differenti
2 shared topics
Zarr — chunked, compressed N-dimensional arrays for Python with cloud-native storage. Provides hierarchical groups, pluggable compression codecs (Blosc, Zstd, Gzip), sharding for large-scale datasets,
1 shared topic • 1 shared operation