Annotation
- Artemis 15.0.6 – Genome Browser and Annotation Tool
- SemanticSBML 2.0 – Annotation Checking& Merging of Systems Biology Models
- ncFANs v2 – non-coding RNA Function Annotation Server
- Gimli 1.0.2 – Annotation of Biomedical Entity Names
- LS-SNP/PDB – Genome-wide Annotation of Human SNPs
- CHASM 1.0.6 – Cancer-specific High-throughput Annotation of Somatic Mutations
- ClueGO 2.0.1 – Cytoscape Plugin to Decipher Gene Ontology and Pathway Annotation Networks
- ZMap 0.13.0 – Feature Annotation Viewer
- Apollo 1.11.8 – Genome Annotation Viewer & Editor
- snpEff 3.1h / SnpSift 1.8 – Variant Annotation and Effect Prediction Tool
- POLYVIEW-2D / POLYVIEW-3D / POLYVIEW-MM – Protein Structure Annotation using Sequence Profiles / Structures / Motions
- PipeMeta Beta 0.44 – Run a de novo Transcriptome Annotation Pipeline
- MU2A 1.0 – Single Nucleotide Variant Annotation
- SNAP 2.2 – Identification and Annotation of proxy SNPs using HapMap
- GeneCruiser 3.2.2 – Annotation of Microarray data
- V-FAT 1.1 – Automated Finishing, Annotation, and QA tool for Viral Assemblies
- YAMAP – Yet Another Microbial/Metagenomic Annotation Pipeline
- PeakAnalyzer 1.4 – Genome-wide Annotation of Chromatin Binding and Modification Loci.
- Jannotatix 0.8 – Sequence and Annotation Viewer
- AGSNP 1.2 – Annotation-based, Genome-wide SNP Discovery
- DAWGPAWS 1.1 – Genome Annotation Pipeline
- svmPRAT 1.0 – svm-Based Protein Residue Annotation Toolkit
- LTRsift 1.0.1 – Postprocessing of de novo predicted LTR Retrotransposon Annotations
- LTRdigest 1.3.3 – Annotation of Internal Features of LTR Retrotransposons
- EpiHap 0.5 – Annotation on Sequence-associated DNA Methylation sites
- Reflect - Automated Annotation of Biochemical Terms in web pages
- OnTheFly 2.0 Beta – Automated Annotation of Biochemical Terms in PDF, Text and Microsoft Office documents
- MetaTISA – Translation Initiation Site Annotation for Metagenomes
- PMUT – Web-based Tool for the Annotation of Pathological Mutations on Proteins
- MetAnnoGen – Metabolic Network Annotation
- SAAP-RRBS 1.0.1 – Streamlined Analysis and Annotation Pipeline for RRBS
- PhyloGena 1.04 – Automated Interactive Phylogenetic Annotation Tool
- MAKER 2 20120722 – Genome Annotation pipeline
- REPET 2.0 – Detection, Annotation and Analysis of Repeats in Genomic Sequences
- ParsEval 0.9.1 – Compare Two Sets of Gene Structure Annotations
- PASA 20120625 – Gene Structure Annotation & Analysis
- AAT 20110305 – Analysis & Annotation of Genomic Sequences
- RAMMCAP 20091106 – Rapid Analysis of Multiple Metagenomes with a Clustering and Annotation Pipeline
- STRAP 1.1 – Software Tool for Rapid Annotation of Proteins
- Manatee 2.4.3 – Functional Annotation
- GOblet – Gene Ontology Annotation of Anonymous Sequence Data
- SmashCommunity 1.6p2 – Metagenomic Analysis and Annotation Tool
- GenBank2Treedyn 21 – Extract Annotations from GenBank Files
- GO-SCAN 2.2 – Gene Ontology for Significant Collection of Annotations
- BreakSeq 1.3 – Structural Variants Annotation and Identification pipeline
- KOBAS 2.0 – Annotation and Identification of Enriched Pathways and Diseases
- Rocket – Confirm Clones Match the Annotations provided by the Supplier
- gff2ps 0.98d – Visualize Annotations of Genomic Sequences
- CgiHunter 1.0 – Exhaustive CpG Island Annotation
- APAT 1.4.1 – Automated Protein Annotation Tool
- ECN 20050107 – Expression Annotation of Copy Number
- TreeDyn 198.3 – Dynamic Graphics & Annotations for Phylogenetic Analyses
- XRNA 1.2.0b – Creation, Annotation & Display of RNA Secondary Structure Diagrams
- goldMINER 2.0.27 – Use CDD to Automate Sequence Annotation
- yrGATE – Gene Structure Annotation Tool
- eGATU – easy Genome Annotation Transfer Utility
- GATU – Genome Annotation Transfer Utility
- SPICE 0.9 – Protein Sequences, Structures & Annotations Browser
- annot8r 1.1.1 – BLAST based GO-EC-KEGG Annotation
- DIYA 1.0.1 – Microbial Genome Sequences Annotation
- mVISTA – Compare Sequences & Visualize Alignments with Annotation Information
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