bamtools convert -format json -in myData.bam -out myData.json
Currently supported output formats ( BAM -> X )
| Format type | FORMAT (command-line argument) |
|---|---|
| BED | bed |
| FASTA | fasta |
| FASTQ | fastq |
| JSON | json |
| Pileup | pileup |
| SAM | sam |
| YAML | yaml |
Pileup Options have no effect on formats other than "pileup". SAM Options have no effect on formats other than "sam"