Annotation

Query returned 20 results.

	Biological domain	Bioinformatics method	Input format	Output format
ANNOVAR	Genomics Genetics	Annotation Variant prioritisation
BioNumerics	Sequence assembly Whole genome resequencing Genotyping Sequence analysis Comparative genomics Quality control Workflows Data handling Microbial Surveillance Epidemiology	Sequence assembly Read mapping Sequence alignment Annotation Genome visualisation Variant calling Comparative genomics Workflows	FNAQual .bam (C)FAST(A/Q) Compressed fastq .ab1 And many others.
CLCbio Genomics Workbench	Sequence assembly (de novo assembly) Whole genome resequencing Genomics Transcriptomics ChIP-seq SNP detection Indel detection RNA-Seq Regulatory RNA Mapping	Sequence assembly Sequence assembly (de-novo assembly) Read mapping Sequence alignment Ab-initio gene prediction Adapter removal Annotation Bisulfite mapping SNP calling Heat map generation Sequence assembly validation	FASTA FASTQ SAM BAM CSFASTA/CSQUAL (ABI SOLiD) ELAND GenBank Illumina Bustard	FASTA FASTQ SAM BAM GFF GenBank ACE Nexus CSV PDF XLS
CRAVAT	Genomics Genetic variation Genetics	Annotation Variant prioritisation SNP annotation Variant classification Sequence annotation	VCF TSV	TSV
Genedata Expressionist	Genomics Transcriptomics DNA methylation ChIP-seq SNP detection Indel detection RNA-Seq Sequencing Laboratory information management Copy number estimation Epigenetics Gene structure	Read mapping Sequence alignment Annotation Bisulfite mapping Clustering Genome visualisation Sequencing quality control Sequence analysis Statistical calculation Gene expression analysis RNA-Seq analysis	FASTA FASTQ QSEQ SAM BAM GFF BED VCF GTF BedGraph 2bit Nib GDC And many others.
Geneious	Sequence assembly (de novo assembly) Genomics RNA-Seq Metagenomics Epigenomics Structural variation Sequence analysis Phylogenetics Population genetics	Sequence assembly Read mapping Sequence alignment Visualisation Annotation Sequence assembly validation Genome visualisation Variant calling DNA barcoding Sequence motif discovery	FASTA FASTQ SAM ELAND GenBank CSFASTA CSQUAL
GeneTalk	Structural variation	Annotation Sequence contamination filtering Sequence analysis Variant calling Genetic variation analysis Plotting and rendering Exome analysis Variant classification	VCF	XLS VCF XLSX
Golden Helix	Genomics SNP detection Epigenomics Sequencing Copy number estimation Data handling	Annotation Genome visualisation Sequencing quality control Sequence contamination filtering Variant calling Statistical calculation Collapsing methods Variant classification
KBASE	Comparative genomics	Annotation
Lasergene	Sequence assembly (de novo assembly) Genomics SNP detection Indel detection Mapping Transcription factors and regulatory sites Sequence analysis Phylogenetics Protein structure analysis	Sequence assembly Read mapping Sequence alignment Peak calling Annotation Sequence analysis Scaffolding Sequence alignment analysis Chromatogram visualisation PCR primer design
LSKB, Life Science Knowledge Bank	Genomics	Annotation SNP calling Sequence analysis Differential expression analysis Pathway or network analysis Classification Analysis pipeline Functional analysis
MG-RAST	Metagenomics Phylogenetics Metabolic reconstruction	Annotation	FASTA FASTQ SFF (Compressed) FASTQ (Compressed) FASTA	FASTA BIOM
NucleR	ChIP-seq Epigenomics ChIP-on-chip DNA packaging	Peak calling Annotation	ShortRead BioConductor	BED WIG BioConductor
Proxygenes	Metagenomics	Read mapping Annotation
RAST	Genomics Phylogenetics	Genomics Annotation
Segtor	SNP	Annotation SNP annotation	Tab-delimited	Tab-delimited
SeqBuster	Transcriptomics Regulatory RNA	Read mapping Annotation	FASTA Tab-delimited	Tab-delimited
SequenceVariantAnalyzer	Genomics Personalised medicine Sequence analysis Genetic variation	Annotation SNP calling Genome visualisation	SAMtools HMMCNV	Sva
Vectorfriends		Sequence assembly Sequence alignment Visualisation Annotation Sequence alignment visualisation
WebApollo	Genomics Sequence annotation Sequence functional annotation	Annotation	BAM GFF3 BigWig	BED GFF3