...
| Code Block |
|---|
samtools sort bowtie_samtools/REL606.5.bam bowtie_samtools/sorted_REL606.5 |
Both are available at
| Code Block |
|---|
/corral-repl/utexas/BioITeam/ngs_course/local/data/mapping_example/scripts |
Output VCF file.
| Code Block |
|---|
samtools mpileup -uf bowtie_samtools/REL606.5.fasta bowtie_samtools/sorted_REL606.5.bam \|bcftools view -vcg - \> bowtie_samtools/output.vcf |
...