BWA(PE)+GE
Introduction
Map short reads to reference genome by using BWA, and the result is visualized by Genome Explorer(GE) on the web.
| Input format | FASTQ(Illumina, IonTorrent, etc...) |
| Library layout | For single-end read only |
| Species | Human(hg19,hg18),Mouse(mm9,mm10),Rat(rn4),Chicken(galGal3,galGal4),Yeast(sacCer2), Macaque(rheMac2), Arabidopsis(tair10) |
| Execution time | About 5 hours. (80M paired-end reads[50bp+50bp]) |
Pipeline history
Outputs
Inputs
FASTQ-formatted dna sequence file (paired-end)
read1
|
read2
| ||
FASTQ Format Specification
Options
Comments
Use case
Related information
Public
| BWA | (Original site) | (NGS Surfer's wiki) | |
| SAMtools | (Original site) | (NGS Surfer's wiki) | |