Skip to main content
Figure 1 | BMC Bioinformatics

Figure 1

From: Analysing 454 amplicon resequencing experiments using the modular and database oriented Variant Identification Pipeline

Figure 1

Overview of the VIP pipeline. Overview of the Variant Identification Pipeline (black arrows and white text-boxes) and the VIP Validator (grey arrows and grey text-boxes). The analysis pipeline consists of 4 modules. 1) Raw sequences are extracted from the FASTA files generated by the GS-FLX sequencer and processed into sequenced amplicons and additional information. 2a) Reference amplicons are generated using a list of reference sequences and the list of primers. 2b) Mapping is carried out with BLAT using the reference amplicons and the sequenced amplicons. Variations are detected and stored in the database. 3) The requested reports are generated. The VIP Validator introduces additional variation in the sequence reads and reanalyses those sequences to validate the pipeline for that specific variation.

Back to article page

BMC Bioinformatics

ISSN: 1471-2105

Contact us