How to use the BWA tool

BWA Algorithm Introduction:

• Bwa-bactrack
• Bwa-sw
• Bwa-mem

BWA Installation:

# Installing BWA tar jxf ~/software/bwa-0.7. . tar. bz2-c/opt/biosoft//opt/biosoft/bwa-0.7. /Makeecho'path= $PATH:/opt/biosoft/bwa-0.7.10' >> ~/~/.BASHRC

BWA Steps to use:

1. Building the index database of a reference genome using BWA
2. Bwa-mem (less than BWA-SW and Bwa-backtrack)

Specific commands:

# Create a run directory and entermkdir-P ~/train/ to. reads_aligment/BWACD to. reads_aligment/bwa/# Create soft links for raw data to facilitate data processingLN-S ~/data/xx. incipient_data/data_for_gene_prediction_and_rna-seq/Genome.fastaLN-S ~/data/xx. incipient_data/data_for_variants_calling/f2- +.?. FASTQ./# Create a reference Genome Index BWA Index Genome.fasta-p genome# Create Sam file Bwa Mem-T4Genome f2-19.1. FASTQ f2-19.2. fastq > f2- +. Mem.sam

Resources:

BWA Official website

NGS Bio-Information Analysis V4.2

How to use the BWA tool