1 / 1

Annotated Roche 454 contigs /singletons (*. fasta )

Genotype 1 (AL8/78). Genotype 2 (AS75). Roche 454 reads (*.sff). ABI SOLiD reads (*. csfasta . *_ QV.qual ). Illumina reads (. fastq ). Annotated Roche 454 contigs /singletons (*. fasta ). Convert to fastq files. Read mapping.

dominica-ronnie
Download Presentation

Annotated Roche 454 contigs /singletons (*. fasta )

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Genotype 1 (AL8/78) Genotype 2 (AS75) Roche 454 reads (*.sff) ABI SOLiD reads (*.csfasta. *_QV.qual) Illumina reads (.fastq) Annotated Roche 454 contigs/singletons (*.fasta) Convert to fastq files Read mapping Align (or map) reads from genotype 2 to unique Roche 454 contigs/singletons from genotype 1 (bwa) (separately for different sequencing platforms ) Mapping result file(s) for each sequencing platform: *.sam (SAMTools) SNP calling Convert and sort to *.bam files; Merge *.bam files (SAMTools) SNP calling (SAMTools) SNPs from Roche 454 reads SNPs from SOLiD reads SNPs from Illumina reads SNP filtering Merge all SNPs, filter unwanted SNPs and summarize merged SNPs High quality SNPs and genotyping-ready SNP sequences

More Related