Mapping

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The bioinformatics applications assigned the Biological domain Mapping ([ ]) are tabulated below.

Definition:

Synonyms:

Query returned 13 results.

	Biological domain	Bioinformatics method	Input format	Output format
BWA	Mapping	Read mapping	FASTA FASTQ	SAM
BWA-SW	Mapping	Read mapping	FASTA FASTQ	SAM
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
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
Omixon Variant Toolkit	SNP detection Indel detection Mapping Sequence analysis Comparative genomics	Sequence assembly Read mapping Sequence alignment	FASTQ SAM CSFASTA Most others	SAM GFF VCF
RazerS	Mapping	Read mapping Local sequence alignment	FASTA FASTQ	SAM GFF Eland AMOS
RNA	Mapping	Read mapping	(Compressed) FASTQ (Compressed) FASTA	SAM BAM
Seq2HLA	Transcriptomics Mapping	Read mapping Genetic variation analysis	FASTQ	.txt Sam Console (browser) - output
Spiral Genetics	Sequence assembly Whole genome resequencing SNP detection Mapping Sequence analysis Statistical calculation DNA-Seq Exome and whole genome variant detection Genomic assembly Quality control	Read mapping Sequence alignment File reformatting	FASTQ Fastq.gz	VCF 4.1
Subjunc	RNA-Seq alignment Mapping Sequencing RNA splicing	Read alignment	FASTQ
Subread	Whole genome resequencing RNA-Seq alignment Mapping Next Generation Sequencing	Read mapping	(C)FAST(A/Q)	SAM
ViralFusionSeq	Sequence assembly (de novo assembly) Genomics Mapping Gene structure	Sequence assembly Read mapping Sequence alignment Read pre-processing	FASTQ (Compressed) FASTQ Single-end and Paired end	FASTA Custom .fasta
VirusSeq	Genomics Mapping	Read mapping	FASTQ