GT: GenomeTraveler
GenomeTraveler is the integrated NGS analysis software package integrative the core functions of IMC and MGG.
- Functions and Features
- IMC functions to be incorparated into GT
- Future Develpment Plan
Functions and Features
- NGS Mapping
- NGS short reads Mapping on the reference genome sequences and results viewing
- Mapping is done on multi-chromosome genomes
- Three data types of new giga sequencers can be processed.
- Roche/454 GS FLX
- ABI SOLiD
- illumina GA
- FastQ
- CSFastA
- Traditional capillary sequencer data is also mapped
- GenBank/EMBL
- FastA
- Plain Text
- ABI/SCF
- PHD
- Genome-wise Viewer
- Mapping results are viewed in wide dynamic range from sequence level view to chromosome level view.
- All the existing features on the reference genome sequence can be browsed along with the mapped short reads alignment
- Comparative Analysis
- IMC's feature map is implemented.
- Tiling array profiles are browsed in parallel to the NGS mapping coverage depth profiles.
- Any arbitrary numerical genome position specific data can be shown as one of profiles along with NGS and tiling array profiles.
- Import
- Import the result files of other programs
- BED
- GFF
- SAM/BAM
- others
- Detections and Identifications
- Automated detection of mutation sites and list up the comparison between the existing SNPs sites and this newly detected mutation sites.
- Automated detection of peaks
IMC Functions to be incorporated into GT
- Feature Map (implemented)
- Profile graphs(implemented)
- Feature Layout Style (implemented)
- New Feature Registration(implemented)
- Automatic feature registration of mutation sites
- Automatic feature registration of peak regions
- Feature Search
- Feature Import and Mapping
- SNPs mapping
- ORF Search
- Automated Annotation
- Pattern Search
- Keyword Search
- DDBJ/GenBank/EMBL File Generation
- Primer Design
- Array Profile Viewer(implemented)
Future Enhancements
GenomeTraveler will be enhanced constantly reflecting its users requests and opinions about its future specification
